CLN3 - Gene info - The Human Protein Atlas

CLN3

TISSUE

SUBCELL

CELL LINE

CANCER

GENE INFORMATION

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Gene name	CLN3 (HGNC Symbol)
Synonyms	BTS, JNCL
Description	Ceroid-lipofuscinosis, neuronal 3 (HGNC Symbol)
Entrez gene summary	This gene encodes a protein that is involved in lysosomal function. Mutations in this, as well as other neuronal ceroid-lipofuscinosis (CLN) genes, cause neurodegenerative diseases commonly known as Batten disease or collectively known as neuronal ceroid lipofuscinoses (NCLs). Many alternatively spliced transcript variants have been found for this gene. [provided by RefSeq, Jul 2008]
Chromosome	16
Cytoband	p11.2
Chromosome location (bp)	28477983 - 28506896
Protein evidence	Evidence at protein level (all genes)
Ensembl	ENSG00000188603 (version 75.37)
Entrez gene	1201
UniProt	Q13286 (UniProt - Evidence at protein level)
neXtProt	NX_Q13286
Antibodypedia	CLN3 antibodies

PROTEIN VIEW

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CLN3-001		CLN3-005		CLN3-006		CLN3-007		CLN3-008		CLN3-009		CLN3-010		CLN3-011		CLN3-012		CLN3-014		CLN3-015		CLN3-017		CLN3-018		CLN3-019		CLN3-020		CLN3-027		CLN3-030		CLN3-031		CLN3-034		CLN3-035		CLN3-201		CLN3-202		CLN3-203		CLN3-204		CLN3-205		CLN3-206

PROTEIN INFORMATION

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Splice variant	Ensembl	UniProt	Protein class	Gene ontology	Length (aa)	Molecular mass (kDa)	Signal peptide (predicted)	Transmembrane regions (predicted)
CLN3-001	ENSP00000454229 ENST00000569430	Q13286 Show all » « Hide Q13286 [Direct mapping] Battenin B4DFF3 [Target identity:87%; Query identity:100%] Battenin; Ceroid-lipofuscinosis, neuronal 3, juvenile (Batten, Spielmeyer-Vogt disease), isoform CRA_d; cDNA FLJ60087, highly similar to Protein CLN3 B4DXV0 [Target identity:60%; Query identity:100%] cDNA FLJ59098, highly similar to Protein CLN3 H3BPL0 [Target identity:16%; Query identity:100%] Battenin	Show » « Hide Membrane proteins predicted by MDM MEMSAT3 predicted membrane proteins MEMSAT-SVM predicted membrane proteins Phobius predicted membrane proteins SCAMPI predicted membrane proteins SPOCTOPUS predicted membrane proteins THUMBUP predicted membrane proteins TMHMM predicted membrane proteins 9TM proteins predicted by MDM Predicted membrane proteins Prediction method-based # TM segments-based Disease related genes Protein evidence (Kim et al 2014) Protein evidence (Ezkurdia et al 2014)	Show » « Hide GO:0000046 [autophagic vacuole fusion] GO:0000139 [Golgi membrane] GO:0001508 [regulation of action potential] GO:0001575 [globoside metabolic process] GO:0005515 [protein binding] GO:0005634 [nucleus] GO:0005737 [cytoplasm] GO:0005739 [mitochondrion] GO:0005764 [lysosome] GO:0005765 [lysosomal membrane] GO:0005769 [early endosome] GO:0005770 [late endosome] GO:0005776 [autophagic vacuole] GO:0005783 [endoplasmic reticulum] GO:0005794 [Golgi apparatus] GO:0005795 [Golgi stack] GO:0005802 [trans-Golgi network] GO:0005886 [plasma membrane] GO:0005901 [caveola] GO:0006457 [protein folding] GO:0006520 [cellular amino acid metabolic process] GO:0006672 [ceramide metabolic process] GO:0006678 [glucosylceramide metabolic process] GO:0006681 [galactosylceramide metabolic process] GO:0006684 [sphingomyelin metabolic process] GO:0006898 [receptor-mediated endocytosis] GO:0007034 [vacuolar transport] GO:0007040 [lysosome organization] GO:0007042 [lysosomal lumen acidification] GO:0008021 [synaptic vesicle] GO:0008219 [cell death] GO:0008306 [associative learning] GO:0015809 [arginine transport] GO:0016020 [membrane] GO:0016021 [integral to membrane] GO:0016236 [macroautophagy] GO:0016242 [negative regulation of macroautophagy] GO:0016485 [protein processing] GO:0030163 [protein catabolic process] GO:0030176 [integral component of endoplasmic reticulum membrane] GO:0035235 [ionotropic glutamate receptor signaling pathway] GO:0035752 [lysosomal lumen pH elevation] GO:0042133 [neurotransmitter metabolic process] GO:0042987 [amyloid precursor protein catabolic process] GO:0043005 [neuron projection] GO:0043066 [negative regulation of apoptotic process] GO:0043086 [negative regulation of catalytic activity] GO:0043524 [negative regulation of neuron apoptotic process] GO:0045121 [membrane raft] GO:0045861 [negative regulation of proteolysis] GO:0047496 [vesicle transport along microtubule] GO:0050885 [neuromuscular process controlling balance] GO:0051082 [unfolded protein binding] GO:0051480 [cytosolic calcium ion homeostasis] GO:0061024 [membrane organization]	438	47.6	No	9
CLN3-005	ENSP00000455387 ENST00000567963	H3BPM8 Show all » « Hide H3BPM8 [Target identity:100%; Query identity:100%] Battenin H3BPL0 [Target identity:21%; Query identity:100%] Battenin	Show » « Hide Membrane proteins predicted by MDM MEMSAT3 predicted membrane proteins MEMSAT-SVM predicted membrane proteins Phobius predicted membrane proteins SCAMPI predicted membrane proteins SPOCTOPUS predicted membrane proteins THUMBUP predicted membrane proteins TMHMM predicted membrane proteins 6TM proteins predicted by MDM Predicted membrane proteins Prediction method-based # TM segments-based Protein evidence (Kim et al 2014) Protein evidence (Ezkurdia et al 2014)	Show » « Hide GO:0016020 [membrane]	341	36.3	No	6
CLN3-006	ENSP00000329171 ENST00000333496	B4DXL3 Show all » « Hide B4DXL3 [Target identity:100%; Query identity:100%] Battenin; cDNA FLJ58551, highly similar to Protein CLN3 Q2TA70 [Target identity:86%; Query identity:100%] Battenin; CLN3 protein; Uncharacterized protein H3BPL0 [Target identity:17%; Query identity:100%] Battenin	Show » « Hide Membrane proteins predicted by MDM MEMSAT3 predicted membrane proteins MEMSAT-SVM predicted membrane proteins Phobius predicted membrane proteins SCAMPI predicted membrane proteins SPOCTOPUS predicted membrane proteins THUMBUP predicted membrane proteins TMHMM predicted membrane proteins 9TM proteins predicted by MDM Predicted membrane proteins Prediction method-based # TM segments-based Protein evidence (Kim et al 2014) Protein evidence (Ezkurdia et al 2014)	Show » « Hide GO:0016020 [membrane]	414	45.2	No	9
CLN3-007	ENSP00000379014 ENST00000395653	B4DMY6 Show all » « Hide B4DMY6 [Target identity:100%; Query identity:100%] Battenin; Ceroid-lipofuscinosis, neuronal 3, juvenile (Batten, Spielmeyer-Vogt disease), isoform CRA_k; cDNA FLJ59353, highly similar to Protein CLN3 H3BUF8 [Target identity:35%; Query identity:100%] Battenin	Show » « Hide Membrane proteins predicted by MDM MEMSAT3 predicted membrane proteins MEMSAT-SVM predicted membrane proteins Phobius predicted membrane proteins SCAMPI predicted membrane proteins SPOCTOPUS predicted membrane proteins THUMBUP predicted membrane proteins TMHMM predicted membrane proteins 8TM proteins predicted by MDM Predicted membrane proteins Prediction method-based # TM segments-based Protein evidence (Kim et al 2014) Protein evidence (Ezkurdia et al 2014)	Show » « Hide GO:0016020 [membrane]	338	37	No	8
CLN3-008	ENSP00000350457 ENST00000357806	Q13286 Show all » « Hide Q13286 [Direct mapping] Battenin H3BQ48 [Target identity:54%; Query identity:100%] Battenin H3BPL0 [Target identity:21%; Query identity:100%] Battenin	Show » « Hide Membrane proteins predicted by MDM MEMSAT3 predicted membrane proteins MEMSAT-SVM predicted membrane proteins Phobius predicted membrane proteins SCAMPI predicted membrane proteins SPOCTOPUS predicted membrane proteins THUMBUP predicted membrane proteins TMHMM predicted membrane proteins 6TM proteins predicted by MDM Predicted membrane proteins Prediction method-based # TM segments-based Disease related genes Protein evidence (Kim et al 2014) Protein evidence (Ezkurdia et al 2014)	Show » « Hide GO:0000046 [autophagic vacuole fusion] GO:0000139 [Golgi membrane] GO:0001508 [regulation of action potential] GO:0001575 [globoside metabolic process] GO:0005515 [protein binding] GO:0005634 [nucleus] GO:0005737 [cytoplasm] GO:0005739 [mitochondrion] GO:0005764 [lysosome] GO:0005765 [lysosomal membrane] GO:0005769 [early endosome] GO:0005770 [late endosome] GO:0005776 [autophagic vacuole] GO:0005783 [endoplasmic reticulum] GO:0005794 [Golgi apparatus] GO:0005795 [Golgi stack] GO:0005802 [trans-Golgi network] GO:0005886 [plasma membrane] GO:0005901 [caveola] GO:0006457 [protein folding] GO:0006520 [cellular amino acid metabolic process] GO:0006672 [ceramide metabolic process] GO:0006678 [glucosylceramide metabolic process] GO:0006681 [galactosylceramide metabolic process] GO:0006684 [sphingomyelin metabolic process] GO:0006898 [receptor-mediated endocytosis] GO:0007034 [vacuolar transport] GO:0007040 [lysosome organization] GO:0007042 [lysosomal lumen acidification] GO:0008021 [synaptic vesicle] GO:0008219 [cell death] GO:0008306 [associative learning] GO:0015809 [arginine transport] GO:0016020 [membrane] GO:0016021 [integral to membrane] GO:0016236 [macroautophagy] GO:0016242 [negative regulation of macroautophagy] GO:0016485 [protein processing] GO:0030163 [protein catabolic process] GO:0030176 [integral component of endoplasmic reticulum membrane] GO:0035235 [ionotropic glutamate receptor signaling pathway] GO:0035752 [lysosomal lumen pH elevation] GO:0042133 [neurotransmitter metabolic process] GO:0042987 [amyloid precursor protein catabolic process] GO:0043005 [neuron projection] GO:0043066 [negative regulation of apoptotic process] GO:0043086 [negative regulation of catalytic activity] GO:0043524 [negative regulation of neuron apoptotic process] GO:0045121 [membrane raft] GO:0045861 [negative regulation of proteolysis] GO:0047496 [vesicle transport along microtubule] GO:0050885 [neuromuscular process controlling balance] GO:0051082 [unfolded protein binding] GO:0051480 [cytosolic calcium ion homeostasis] GO:0061024 [membrane organization]	339	38	No	6
CLN3-009	ENSP00000455603 ENST00000568558	H3BQ48 Show all » « Hide H3BQ48 [Target identity:100%; Query identity:100%] Battenin	Show » « Hide Membrane proteins predicted by MDM MEMSAT3 predicted membrane proteins MEMSAT-SVM predicted membrane proteins Phobius predicted membrane proteins SCAMPI predicted membrane proteins SPOCTOPUS predicted membrane proteins THUMBUP predicted membrane proteins TMHMM predicted membrane proteins 1TM proteins predicted by MDM Predicted membrane proteins Prediction method-based # TM segments-based Protein evidence (Kim et al 2014) Protein evidence (Ezkurdia et al 2014)	Show » « Hide GO:0016020 [membrane]	184	20.7	No	1
CLN3-010	ENSP00000456414 ENST00000568497	H3BRU8 Show all » « Hide H3BRU8 [Target identity:100%; Query identity:100%] Battenin H3BPL0 [Target identity:90%; Query identity:100%] Battenin	Show » « Hide Membrane proteins predicted by MDM Phobius predicted membrane proteins SPOCTOPUS predicted membrane proteins THUMBUP predicted membrane proteins TMHMM predicted membrane proteins 1TM proteins predicted by MDM Predicted membrane proteins Prediction method-based # TM segments-based Protein evidence (Kim et al 2014) Protein evidence (Ezkurdia et al 2014)	Show » « Hide GO:0016020 [membrane]	82	9.1	No	1
CLN3-011	ENSP00000455549 ENST00000568422	H3BQ08 Show all » « Hide H3BQ08 [Target identity:100%; Query identity:100%] Battenin	Show » « Hide Membrane proteins predicted by MDM MEMSAT3 predicted membrane proteins Phobius predicted membrane proteins SCAMPI predicted membrane proteins THUMBUP predicted membrane proteins TMHMM predicted membrane proteins 1TM proteins predicted by MDM Predicted membrane proteins Prediction method-based # TM segments-based Protein evidence (Kim et al 2014) Protein evidence (Ezkurdia et al 2014)		132	14.3	No	1
CLN3-012	ENSP00000350523 ENST00000357857	B4DFF3 Show all » « Hide B4DFF3 [Target identity:100%; Query identity:100%] Battenin; Ceroid-lipofuscinosis, neuronal 3, juvenile (Batten, Spielmeyer-Vogt disease), isoform CRA_d; cDNA FLJ60087, highly similar to Protein CLN3 B4DXV0 [Target identity:69%; Query identity:100%] cDNA FLJ59098, highly similar to Protein CLN3	Show » « Hide Membrane proteins predicted by MDM MEMSAT3 predicted membrane proteins MEMSAT-SVM predicted membrane proteins Phobius predicted membrane proteins SCAMPI predicted membrane proteins SPOCTOPUS predicted membrane proteins THUMBUP predicted membrane proteins TMHMM predicted membrane proteins 8TM proteins predicted by MDM Predicted membrane proteins Prediction method-based # TM segments-based Protein evidence (Kim et al 2014) Protein evidence (Ezkurdia et al 2014)	Show » « Hide GO:0016020 [membrane]	384	41.6	No	8
CLN3-014	ENSP00000458015 ENST00000565778	O95090 Show all » « Hide O95090 [Target identity:100%; Query identity:100%] Battenin; CLN3 protein H3BPL0 [Target identity:44%; Query identity:100%] Battenin	Show » « Hide MEMSAT3 predicted membrane proteins SPOCTOPUS predicted membrane proteins THUMBUP predicted membrane proteins Protein evidence (Kim et al 2014) Protein evidence (Ezkurdia et al 2014)	Show » « Hide GO:0016020 [membrane]	167	18.5	No	0
CLN3-015	ENSP00000456013 ENST00000567495	Q9UBD8 Show all » « Hide Q9UBD8 [Target identity:100%; Query identity:100%] Battenin; CLN3 protein H3BPL0 [Target identity:40%; Query identity:100%] Battenin	Show » « Hide Membrane proteins predicted by MDM MEMSAT3 predicted membrane proteins MEMSAT-SVM predicted membrane proteins Phobius predicted membrane proteins SCAMPI predicted membrane proteins SPOCTOPUS predicted membrane proteins THUMBUP predicted membrane proteins TMHMM predicted membrane proteins 3TM proteins predicted by MDM Predicted membrane proteins Prediction method-based # TM segments-based Protein evidence (Kim et al 2014) Protein evidence (Ezkurdia et al 2014)	Show » « Hide GO:0016020 [membrane]	181	19.3	No	3
CLN3-017	ENSP00000454899 ENST00000568443	H3BNK7 Show all » « Hide H3BNK7 [Target identity:100%; Query identity:100%] Battenin Q9UP05 [Target identity:79%; Query identity:100%] CLN3 protein	Show » « Hide Membrane proteins predicted by MDM MEMSAT3 predicted membrane proteins MEMSAT-SVM predicted membrane proteins SPOCTOPUS predicted membrane proteins THUMBUP predicted membrane proteins 2TM proteins predicted by MDM Predicted membrane proteins Prediction method-based # TM segments-based Protein evidence (Kim et al 2014) Protein evidence (Ezkurdia et al 2014)	Show » « Hide GO:0016020 [membrane]	175	18.9	No	2
CLN3-018	ENSP00000456693 ENST00000566057	Q9UBH5 Show all » « Hide Q9UBH5 [Target identity:100%; Query identity:100%] Battenin; CLN3 protein	Show » « Hide Membrane proteins predicted by MDM MEMSAT3 predicted membrane proteins MEMSAT-SVM predicted membrane proteins Phobius predicted membrane proteins SCAMPI predicted membrane proteins SPOCTOPUS predicted membrane proteins THUMBUP predicted membrane proteins TMHMM predicted membrane proteins 2TM proteins predicted by MDM Predicted membrane proteins Prediction method-based # TM segments-based Protein evidence (Kim et al 2014) Protein evidence (Ezkurdia et al 2014)		105	11.5	No	2
CLN3-019	ENSP00000454680 ENST00000569030	Q13286 Show all » « Hide Q13286 [Direct mapping] Battenin A8JYI8 [Target identity:43%; Query identity:100%] Mutant CLN3 H3BPL0 [Target identity:29%; Query identity:100%] Battenin	Show » « Hide Membrane proteins predicted by MDM MEMSAT3 predicted membrane proteins MEMSAT-SVM predicted membrane proteins Phobius predicted membrane proteins SCAMPI predicted membrane proteins SPOCTOPUS predicted membrane proteins THUMBUP predicted membrane proteins TMHMM predicted membrane proteins 4TM proteins predicted by MDM Predicted membrane proteins Prediction method-based # TM segments-based Disease related genes Protein evidence (Kim et al 2014) Protein evidence (Ezkurdia et al 2014)	Show » « Hide GO:0000046 [autophagic vacuole fusion] GO:0000139 [Golgi membrane] GO:0001508 [regulation of action potential] GO:0001575 [globoside metabolic process] GO:0005515 [protein binding] GO:0005634 [nucleus] GO:0005737 [cytoplasm] GO:0005739 [mitochondrion] GO:0005764 [lysosome] GO:0005765 [lysosomal membrane] GO:0005769 [early endosome] GO:0005770 [late endosome] GO:0005776 [autophagic vacuole] GO:0005783 [endoplasmic reticulum] GO:0005794 [Golgi apparatus] GO:0005795 [Golgi stack] GO:0005802 [trans-Golgi network] GO:0005886 [plasma membrane] GO:0005901 [caveola] GO:0006457 [protein folding] GO:0006520 [cellular amino acid metabolic process] GO:0006672 [ceramide metabolic process] GO:0006678 [glucosylceramide metabolic process] GO:0006681 [galactosylceramide metabolic process] GO:0006684 [sphingomyelin metabolic process] GO:0006898 [receptor-mediated endocytosis] GO:0007034 [vacuolar transport] GO:0007040 [lysosome organization] GO:0007042 [lysosomal lumen acidification] GO:0008021 [synaptic vesicle] GO:0008219 [cell death] GO:0008306 [associative learning] GO:0015809 [arginine transport] GO:0016020 [membrane] GO:0016021 [integral to membrane] GO:0016236 [macroautophagy] GO:0016242 [negative regulation of macroautophagy] GO:0016485 [protein processing] GO:0030163 [protein catabolic process] GO:0030176 [integral component of endoplasmic reticulum membrane] GO:0035235 [ionotropic glutamate receptor signaling pathway] GO:0035752 [lysosomal lumen pH elevation] GO:0042133 [neurotransmitter metabolic process] GO:0042987 [amyloid precursor protein catabolic process] GO:0043005 [neuron projection] GO:0043066 [negative regulation of apoptotic process] GO:0043086 [negative regulation of catalytic activity] GO:0043524 [negative regulation of neuron apoptotic process] GO:0045121 [membrane raft] GO:0045861 [negative regulation of proteolysis] GO:0047496 [vesicle transport along microtubule] GO:0050885 [neuromuscular process controlling balance] GO:0051082 [unfolded protein binding] GO:0051480 [cytosolic calcium ion homeostasis] GO:0061024 [membrane organization]	253	28	No	4
CLN3-020	ENSP00000456117 ENST00000565316	Q13286 Show all » « Hide Q13286 [Direct mapping] Battenin H3BPL0 [Target identity:17%; Query identity:100%] Battenin	Show » « Hide Membrane proteins predicted by MDM MEMSAT3 predicted membrane proteins MEMSAT-SVM predicted membrane proteins Phobius predicted membrane proteins SCAMPI predicted membrane proteins SPOCTOPUS predicted membrane proteins THUMBUP predicted membrane proteins TMHMM predicted membrane proteins 8TM proteins predicted by MDM Predicted membrane proteins Prediction method-based # TM segments-based Disease related genes Protein evidence (Kim et al 2014) Protein evidence (Ezkurdia et al 2014)	Show » « Hide GO:0000046 [autophagic vacuole fusion] GO:0000139 [Golgi membrane] GO:0001508 [regulation of action potential] GO:0001575 [globoside metabolic process] GO:0005515 [protein binding] GO:0005634 [nucleus] GO:0005737 [cytoplasm] GO:0005739 [mitochondrion] GO:0005764 [lysosome] GO:0005765 [lysosomal membrane] GO:0005769 [early endosome] GO:0005770 [late endosome] GO:0005776 [autophagic vacuole] GO:0005783 [endoplasmic reticulum] GO:0005794 [Golgi apparatus] GO:0005795 [Golgi stack] GO:0005802 [trans-Golgi network] GO:0005886 [plasma membrane] GO:0005901 [caveola] GO:0006457 [protein folding] GO:0006520 [cellular amino acid metabolic process] GO:0006672 [ceramide metabolic process] GO:0006678 [glucosylceramide metabolic process] GO:0006681 [galactosylceramide metabolic process] GO:0006684 [sphingomyelin metabolic process] GO:0006898 [receptor-mediated endocytosis] GO:0007034 [vacuolar transport] GO:0007040 [lysosome organization] GO:0007042 [lysosomal lumen acidification] GO:0008021 [synaptic vesicle] GO:0008219 [cell death] GO:0008306 [associative learning] GO:0015809 [arginine transport] GO:0016020 [membrane] GO:0016021 [integral to membrane] GO:0016236 [macroautophagy] GO:0016242 [negative regulation of macroautophagy] GO:0016485 [protein processing] GO:0030163 [protein catabolic process] GO:0030176 [integral component of endoplasmic reticulum membrane] GO:0035235 [ionotropic glutamate receptor signaling pathway] GO:0035752 [lysosomal lumen pH elevation] GO:0042133 [neurotransmitter metabolic process] GO:0042987 [amyloid precursor protein catabolic process] GO:0043005 [neuron projection] GO:0043066 [negative regulation of apoptotic process] GO:0043086 [negative regulation of catalytic activity] GO:0043524 [negative regulation of neuron apoptotic process] GO:0045121 [membrane raft] GO:0045861 [negative regulation of proteolysis] GO:0047496 [vesicle transport along microtubule] GO:0050885 [neuromuscular process controlling balance] GO:0051082 [unfolded protein binding] GO:0051480 [cytosolic calcium ion homeostasis] GO:0061024 [membrane organization]	421	45.6	No	8
CLN3-027	ENSP00000455365 ENST00000567804	H3BPL0 Show all » « Hide H3BPL0 [Target identity:100%; Query identity:100%] Battenin	Show » « Hide Membrane proteins predicted by MDM Phobius predicted membrane proteins SPOCTOPUS predicted membrane proteins THUMBUP predicted membrane proteins TMHMM predicted membrane proteins 1TM proteins predicted by MDM Predicted membrane proteins Prediction method-based # TM segments-based Protein evidence (Kim et al 2014) Protein evidence (Ezkurdia et al 2014)	Show » « Hide GO:0016020 [membrane]	74	8.2	No	1
CLN3-030	ENSP00000456122 ENST00000565688	H3BR84 Show all » « Hide H3BR84 [Target identity:100%; Query identity:100%] Battenin	Show » « Hide Membrane proteins predicted by MDM MEMSAT3 predicted membrane proteins MEMSAT-SVM predicted membrane proteins Phobius predicted membrane proteins SCAMPI predicted membrane proteins SPOCTOPUS predicted membrane proteins THUMBUP predicted membrane proteins TMHMM predicted membrane proteins 4TM proteins predicted by MDM Predicted membrane proteins Prediction method-based # TM segments-based Protein evidence (Kim et al 2014) Protein evidence (Ezkurdia et al 2014)	Show » « Hide GO:0016020 [membrane]	176	18.3	No	4
CLN3-031	ENSP00000457615 ENST00000561505	H3BUF8 Show all » « Hide H3BUF8 [Target identity:100%; Query identity:100%] Battenin	Show » « Hide Membrane proteins predicted by MDM MEMSAT3 predicted membrane proteins MEMSAT-SVM predicted membrane proteins Phobius predicted membrane proteins SCAMPI predicted membrane proteins SPOCTOPUS predicted membrane proteins THUMBUP predicted membrane proteins TMHMM predicted membrane proteins 3TM proteins predicted by MDM Predicted membrane proteins Prediction method-based # TM segments-based Protein evidence (Kim et al 2014) Protein evidence (Ezkurdia et al 2014)	Show » « Hide GO:0016020 [membrane]	121	12.5	No	3
CLN3-034	ENSP00000454466 ENST00000564091		Show » « Hide Membrane proteins predicted by MDM MEMSAT3 predicted membrane proteins MEMSAT-SVM predicted membrane proteins Phobius predicted membrane proteins SCAMPI predicted membrane proteins SPOCTOPUS predicted membrane proteins THUMBUP predicted membrane proteins TMHMM predicted membrane proteins 3TM proteins predicted by MDM Predicted membrane proteins Prediction method-based # TM segments-based Protein evidence (Kim et al 2014) Protein evidence (Ezkurdia et al 2014)	Show » « Hide GO:0016020 [membrane]	135	15.3	No	3
CLN3-035	ENSP00000455342 ENST00000565140	Q9UBD8 Show all » « Hide Q9UBD8 [Target identity:100%; Query identity:100%] Battenin; CLN3 protein H3BPL0 [Target identity:40%; Query identity:100%] Battenin	Show » « Hide Membrane proteins predicted by MDM MEMSAT3 predicted membrane proteins MEMSAT-SVM predicted membrane proteins Phobius predicted membrane proteins SCAMPI predicted membrane proteins SPOCTOPUS predicted membrane proteins THUMBUP predicted membrane proteins TMHMM predicted membrane proteins 3TM proteins predicted by MDM Predicted membrane proteins Prediction method-based # TM segments-based Protein evidence (Kim et al 2014) Protein evidence (Ezkurdia et al 2014)	Show » « Hide GO:0016020 [membrane]	181	19.3	No	3
CLN3-201	ENSP00000346650 ENST00000354630	Q13286 Show all » « Hide Q13286 [Direct mapping] Battenin H3BPL0 [Target identity:17%; Query identity:100%] Battenin	Show » « Hide Membrane proteins predicted by MDM MEMSAT3 predicted membrane proteins MEMSAT-SVM predicted membrane proteins Phobius predicted membrane proteins SCAMPI predicted membrane proteins SPOCTOPUS predicted membrane proteins THUMBUP predicted membrane proteins TMHMM predicted membrane proteins 8TM proteins predicted by MDM Predicted membrane proteins Prediction method-based # TM segments-based Disease related genes Protein evidence (Kim et al 2014) Protein evidence (Ezkurdia et al 2014)	Show » « Hide GO:0000046 [autophagic vacuole fusion] GO:0000139 [Golgi membrane] GO:0001508 [regulation of action potential] GO:0001575 [globoside metabolic process] GO:0005515 [protein binding] GO:0005634 [nucleus] GO:0005737 [cytoplasm] GO:0005739 [mitochondrion] GO:0005764 [lysosome] GO:0005765 [lysosomal membrane] GO:0005769 [early endosome] GO:0005770 [late endosome] GO:0005776 [autophagic vacuole] GO:0005783 [endoplasmic reticulum] GO:0005794 [Golgi apparatus] GO:0005795 [Golgi stack] GO:0005802 [trans-Golgi network] GO:0005886 [plasma membrane] GO:0005901 [caveola] GO:0006457 [protein folding] GO:0006520 [cellular amino acid metabolic process] GO:0006672 [ceramide metabolic process] GO:0006678 [glucosylceramide metabolic process] GO:0006681 [galactosylceramide metabolic process] GO:0006684 [sphingomyelin metabolic process] GO:0006898 [receptor-mediated endocytosis] GO:0007034 [vacuolar transport] GO:0007040 [lysosome organization] GO:0007042 [lysosomal lumen acidification] GO:0008021 [synaptic vesicle] GO:0008219 [cell death] GO:0008306 [associative learning] GO:0015809 [arginine transport] GO:0016020 [membrane] GO:0016021 [integral to membrane] GO:0016236 [macroautophagy] GO:0016242 [negative regulation of macroautophagy] GO:0016485 [protein processing] GO:0030163 [protein catabolic process] GO:0030176 [integral component of endoplasmic reticulum membrane] GO:0035235 [ionotropic glutamate receptor signaling pathway] GO:0035752 [lysosomal lumen pH elevation] GO:0042133 [neurotransmitter metabolic process] GO:0042987 [amyloid precursor protein catabolic process] GO:0043005 [neuron projection] GO:0043066 [negative regulation of apoptotic process] GO:0043086 [negative regulation of catalytic activity] GO:0043524 [negative regulation of neuron apoptotic process] GO:0045121 [membrane raft] GO:0045861 [negative regulation of proteolysis] GO:0047496 [vesicle transport along microtubule] GO:0050885 [neuromuscular process controlling balance] GO:0051082 [unfolded protein binding] GO:0051480 [cytosolic calcium ion homeostasis] GO:0061024 [membrane organization]	421	45.6	No	8
CLN3-202	ENSP00000347660 ENST00000355477	Q13286 Show all » « Hide Q13286 [Direct mapping] Battenin O95086 [Target identity:86%; Query identity:100%] CLN3 protein H3BPL0 [Target identity:18%; Query identity:100%] Battenin	Show » « Hide Membrane proteins predicted by MDM MEMSAT3 predicted membrane proteins MEMSAT-SVM predicted membrane proteins Phobius predicted membrane proteins SCAMPI predicted membrane proteins SPOCTOPUS predicted membrane proteins THUMBUP predicted membrane proteins TMHMM predicted membrane proteins 9TM proteins predicted by MDM Predicted membrane proteins Prediction method-based # TM segments-based Disease related genes Protein evidence (Kim et al 2014) Protein evidence (Ezkurdia et al 2014)	Show » « Hide GO:0000046 [autophagic vacuole fusion] GO:0000139 [Golgi membrane] GO:0001508 [regulation of action potential] GO:0001575 [globoside metabolic process] GO:0005515 [protein binding] GO:0005634 [nucleus] GO:0005737 [cytoplasm] GO:0005739 [mitochondrion] GO:0005764 [lysosome] GO:0005765 [lysosomal membrane] GO:0005769 [early endosome] GO:0005770 [late endosome] GO:0005776 [autophagic vacuole] GO:0005783 [endoplasmic reticulum] GO:0005794 [Golgi apparatus] GO:0005795 [Golgi stack] GO:0005802 [trans-Golgi network] GO:0005886 [plasma membrane] GO:0005901 [caveola] GO:0006457 [protein folding] GO:0006520 [cellular amino acid metabolic process] GO:0006672 [ceramide metabolic process] GO:0006678 [glucosylceramide metabolic process] GO:0006681 [galactosylceramide metabolic process] GO:0006684 [sphingomyelin metabolic process] GO:0006898 [receptor-mediated endocytosis] GO:0007034 [vacuolar transport] GO:0007040 [lysosome organization] GO:0007042 [lysosomal lumen acidification] GO:0008021 [synaptic vesicle] GO:0008219 [cell death] GO:0008306 [associative learning] GO:0015809 [arginine transport] GO:0016020 [membrane] GO:0016021 [integral to membrane] GO:0016236 [macroautophagy] GO:0016242 [negative regulation of macroautophagy] GO:0016485 [protein processing] GO:0030163 [protein catabolic process] GO:0030176 [integral component of endoplasmic reticulum membrane] GO:0035235 [ionotropic glutamate receptor signaling pathway] GO:0035752 [lysosomal lumen pH elevation] GO:0042133 [neurotransmitter metabolic process] GO:0042987 [amyloid precursor protein catabolic process] GO:0043005 [neuron projection] GO:0043066 [negative regulation of apoptotic process] GO:0043086 [negative regulation of catalytic activity] GO:0043524 [negative regulation of neuron apoptotic process] GO:0045121 [membrane raft] GO:0045861 [negative regulation of proteolysis] GO:0047496 [vesicle transport along microtubule] GO:0050885 [neuromuscular process controlling balance] GO:0051082 [unfolded protein binding] GO:0051480 [cytosolic calcium ion homeostasis] GO:0061024 [membrane organization]	390	42.8	No	9
CLN3-203	ENSP00000349586 ENST00000357076	Q13286 Show all » « Hide Q13286 [Direct mapping] Battenin A8JYI8 [Target identity:43%; Query identity:100%] Mutant CLN3 H3BPL0 [Target identity:29%; Query identity:100%] Battenin	Show » « Hide Membrane proteins predicted by MDM MEMSAT3 predicted membrane proteins MEMSAT-SVM predicted membrane proteins Phobius predicted membrane proteins SCAMPI predicted membrane proteins SPOCTOPUS predicted membrane proteins THUMBUP predicted membrane proteins TMHMM predicted membrane proteins 4TM proteins predicted by MDM Predicted membrane proteins Prediction method-based # TM segments-based Disease related genes Protein evidence (Kim et al 2014) Protein evidence (Ezkurdia et al 2014)	Show » « Hide GO:0000046 [autophagic vacuole fusion] GO:0000139 [Golgi membrane] GO:0001508 [regulation of action potential] GO:0001575 [globoside metabolic process] GO:0005515 [protein binding] GO:0005634 [nucleus] GO:0005737 [cytoplasm] GO:0005739 [mitochondrion] GO:0005764 [lysosome] GO:0005765 [lysosomal membrane] GO:0005769 [early endosome] GO:0005770 [late endosome] GO:0005776 [autophagic vacuole] GO:0005783 [endoplasmic reticulum] GO:0005794 [Golgi apparatus] GO:0005795 [Golgi stack] GO:0005802 [trans-Golgi network] GO:0005886 [plasma membrane] GO:0005901 [caveola] GO:0006457 [protein folding] GO:0006520 [cellular amino acid metabolic process] GO:0006672 [ceramide metabolic process] GO:0006678 [glucosylceramide metabolic process] GO:0006681 [galactosylceramide metabolic process] GO:0006684 [sphingomyelin metabolic process] GO:0006898 [receptor-mediated endocytosis] GO:0007034 [vacuolar transport] GO:0007040 [lysosome organization] GO:0007042 [lysosomal lumen acidification] GO:0008021 [synaptic vesicle] GO:0008219 [cell death] GO:0008306 [associative learning] GO:0015809 [arginine transport] GO:0016020 [membrane] GO:0016021 [integral to membrane] GO:0016236 [macroautophagy] GO:0016242 [negative regulation of macroautophagy] GO:0016485 [protein processing] GO:0030163 [protein catabolic process] GO:0030176 [integral component of endoplasmic reticulum membrane] GO:0035235 [ionotropic glutamate receptor signaling pathway] GO:0035752 [lysosomal lumen pH elevation] GO:0042133 [neurotransmitter metabolic process] GO:0042987 [amyloid precursor protein catabolic process] GO:0043005 [neuron projection] GO:0043066 [negative regulation of apoptotic process] GO:0043086 [negative regulation of catalytic activity] GO:0043524 [negative regulation of neuron apoptotic process] GO:0045121 [membrane raft] GO:0045861 [negative regulation of proteolysis] GO:0047496 [vesicle transport along microtubule] GO:0050885 [neuromuscular process controlling balance] GO:0051082 [unfolded protein binding] GO:0051480 [cytosolic calcium ion homeostasis] GO:0061024 [membrane organization]	253	28	No	4
CLN3-204	ENSP00000353073 ENST00000359984	Q13286 Show all » « Hide Q13286 [Direct mapping] Battenin B4DFF3 [Target identity:87%; Query identity:100%] Battenin; Ceroid-lipofuscinosis, neuronal 3, juvenile (Batten, Spielmeyer-Vogt disease), isoform CRA_d; cDNA FLJ60087, highly similar to Protein CLN3 B4DXV0 [Target identity:60%; Query identity:100%] cDNA FLJ59098, highly similar to Protein CLN3 H3BPL0 [Target identity:16%; Query identity:100%] Battenin	Show » « Hide Membrane proteins predicted by MDM MEMSAT3 predicted membrane proteins MEMSAT-SVM predicted membrane proteins Phobius predicted membrane proteins SCAMPI predicted membrane proteins SPOCTOPUS predicted membrane proteins THUMBUP predicted membrane proteins TMHMM predicted membrane proteins 9TM proteins predicted by MDM Predicted membrane proteins Prediction method-based # TM segments-based Disease related genes Protein evidence (Kim et al 2014) Protein evidence (Ezkurdia et al 2014)	Show » « Hide GO:0000046 [autophagic vacuole fusion] GO:0000139 [Golgi membrane] GO:0001508 [regulation of action potential] GO:0001575 [globoside metabolic process] GO:0005515 [protein binding] GO:0005634 [nucleus] GO:0005737 [cytoplasm] GO:0005739 [mitochondrion] GO:0005764 [lysosome] GO:0005765 [lysosomal membrane] GO:0005769 [early endosome] GO:0005770 [late endosome] GO:0005776 [autophagic vacuole] GO:0005783 [endoplasmic reticulum] GO:0005794 [Golgi apparatus] GO:0005795 [Golgi stack] GO:0005802 [trans-Golgi network] GO:0005886 [plasma membrane] GO:0005901 [caveola] GO:0006457 [protein folding] GO:0006520 [cellular amino acid metabolic process] GO:0006672 [ceramide metabolic process] GO:0006678 [glucosylceramide metabolic process] GO:0006681 [galactosylceramide metabolic process] GO:0006684 [sphingomyelin metabolic process] GO:0006898 [receptor-mediated endocytosis] GO:0007034 [vacuolar transport] GO:0007040 [lysosome organization] GO:0007042 [lysosomal lumen acidification] GO:0008021 [synaptic vesicle] GO:0008219 [cell death] GO:0008306 [associative learning] GO:0015809 [arginine transport] GO:0016020 [membrane] GO:0016021 [integral to membrane] GO:0016236 [macroautophagy] GO:0016242 [negative regulation of macroautophagy] GO:0016485 [protein processing] GO:0030163 [protein catabolic process] GO:0030176 [integral component of endoplasmic reticulum membrane] GO:0035235 [ionotropic glutamate receptor signaling pathway] GO:0035752 [lysosomal lumen pH elevation] GO:0042133 [neurotransmitter metabolic process] GO:0042987 [amyloid precursor protein catabolic process] GO:0043005 [neuron projection] GO:0043066 [negative regulation of apoptotic process] GO:0043086 [negative regulation of catalytic activity] GO:0043524 [negative regulation of neuron apoptotic process] GO:0045121 [membrane raft] GO:0045861 [negative regulation of proteolysis] GO:0047496 [vesicle transport along microtubule] GO:0050885 [neuromuscular process controlling balance] GO:0051082 [unfolded protein binding] GO:0051480 [cytosolic calcium ion homeostasis] GO:0061024 [membrane organization]	438	47.6	No	9
CLN3-205	ENSP00000353116 ENST00000360019	Q13286 Show all » « Hide Q13286 [Direct mapping] Battenin B4DFF3 [Target identity:87%; Query identity:100%] Battenin; Ceroid-lipofuscinosis, neuronal 3, juvenile (Batten, Spielmeyer-Vogt disease), isoform CRA_d; cDNA FLJ60087, highly similar to Protein CLN3 B4DXV0 [Target identity:60%; Query identity:100%] cDNA FLJ59098, highly similar to Protein CLN3 H3BPL0 [Target identity:16%; Query identity:100%] Battenin	Show » « Hide Membrane proteins predicted by MDM MEMSAT3 predicted membrane proteins MEMSAT-SVM predicted membrane proteins Phobius predicted membrane proteins SCAMPI predicted membrane proteins SPOCTOPUS predicted membrane proteins THUMBUP predicted membrane proteins TMHMM predicted membrane proteins 9TM proteins predicted by MDM Predicted membrane proteins Prediction method-based # TM segments-based Disease related genes Protein evidence (Kim et al 2014) Protein evidence (Ezkurdia et al 2014)	Show » « Hide GO:0000046 [autophagic vacuole fusion] GO:0000139 [Golgi membrane] GO:0001508 [regulation of action potential] GO:0001575 [globoside metabolic process] GO:0005515 [protein binding] GO:0005634 [nucleus] GO:0005737 [cytoplasm] GO:0005739 [mitochondrion] GO:0005764 [lysosome] GO:0005765 [lysosomal membrane] GO:0005769 [early endosome] GO:0005770 [late endosome] GO:0005776 [autophagic vacuole] GO:0005783 [endoplasmic reticulum] GO:0005794 [Golgi apparatus] GO:0005795 [Golgi stack] GO:0005802 [trans-Golgi network] GO:0005886 [plasma membrane] GO:0005901 [caveola] GO:0006457 [protein folding] GO:0006520 [cellular amino acid metabolic process] GO:0006672 [ceramide metabolic process] GO:0006678 [glucosylceramide metabolic process] GO:0006681 [galactosylceramide metabolic process] GO:0006684 [sphingomyelin metabolic process] GO:0006898 [receptor-mediated endocytosis] GO:0007034 [vacuolar transport] GO:0007040 [lysosome organization] GO:0007042 [lysosomal lumen acidification] GO:0008021 [synaptic vesicle] GO:0008219 [cell death] GO:0008306 [associative learning] GO:0015809 [arginine transport] GO:0016020 [membrane] GO:0016021 [integral to membrane] GO:0016236 [macroautophagy] GO:0016242 [negative regulation of macroautophagy] GO:0016485 [protein processing] GO:0030163 [protein catabolic process] GO:0030176 [integral component of endoplasmic reticulum membrane] GO:0035235 [ionotropic glutamate receptor signaling pathway] GO:0035752 [lysosomal lumen pH elevation] GO:0042133 [neurotransmitter metabolic process] GO:0042987 [amyloid precursor protein catabolic process] GO:0043005 [neuron projection] GO:0043066 [negative regulation of apoptotic process] GO:0043086 [negative regulation of catalytic activity] GO:0043524 [negative regulation of neuron apoptotic process] GO:0045121 [membrane raft] GO:0045861 [negative regulation of proteolysis] GO:0047496 [vesicle transport along microtubule] GO:0050885 [neuromuscular process controlling balance] GO:0051082 [unfolded protein binding] GO:0051480 [cytosolic calcium ion homeostasis] GO:0061024 [membrane organization]	438	47.6	No	9
CLN3-206	ENSP00000443221 ENST00000535392	Q2TA70 Show all » « Hide Q2TA70 [Target identity:100%; Query identity:100%] Battenin; CLN3 protein; Uncharacterized protein	Show » « Hide Membrane proteins predicted by MDM MEMSAT3 predicted membrane proteins MEMSAT-SVM predicted membrane proteins Phobius predicted membrane proteins SCAMPI predicted membrane proteins SPOCTOPUS predicted membrane proteins THUMBUP predicted membrane proteins TMHMM predicted membrane proteins 9TM proteins predicted by MDM Predicted membrane proteins Prediction method-based # TM segments-based Protein evidence (Kim et al 2014) Protein evidence (Ezkurdia et al 2014)	Show » « Hide GO:0016020 [membrane]	360	39.2	No	9

The Human Protein Atlas project is funded by the Knut & Alice Wallenberg foundation.