Cln3 (ceroid lipofuscinosis, neuronal 3, juvenile (Batten, Spielmeyer-Vogt disease)) - Rat Genome Database

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Gene: Cln3 (ceroid lipofuscinosis, neuronal 3, juvenile (Batten, Spielmeyer-Vogt disease)) Mus musculus
Analyze
Symbol: Cln3
Name: ceroid lipofuscinosis, neuronal 3, juvenile (Batten, Spielmeyer-Vogt disease)
RGD ID: 1552285
MGI Page MGI
Description: Exhibits calcium-dependent protein binding activity. Involved in several processes, including macroautophagy; modulation of chemical synaptic transmission; and regulation of vesicle-mediated transport. Localizes to several cellular components, including autolysosome; endosome; and trans-Golgi network. Predicted to colocalize with Golgi apparatus and endosome. Is expressed in several structures, including alimentary system; interstitium of the testis; nervous system; sensory organ; and thymus. Used to study neuronal ceroid lipofuscinosis 3. Human ortholog(s) of this gene implicated in neuronal ceroid lipofuscinosis 3. Orthologous to human CLN3 (CLN3 lysosomal/endosomal transmembrane protein, battenin).
Type: protein-coding
RefSeq Status: REVIEWED
Also known as: AI323623; batt; battenin
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: GRCm38 - Mouse Genome Assembly GRCm38
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm397126,170,379 - 126,184,989 (-)NCBIGRCm39mm39
GRCm39 Ensembl7126,170,379 - 126,184,989 (-)Ensembl
GRCm387126,571,207 - 126,585,817 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl7126,571,207 - 126,585,817 (-)EnsemblGRCm38mm10GRCm38
MGSCv377133,714,914 - 133,727,794 (-)NCBIGRCm37mm9NCBIm37
MGSCv367126,362,548 - 126,374,368 (-)NCBImm8
Celera7126,395,665 - 126,433,408 (-)NCBICelera
Cytogenetic Map7F3NCBI
cM Map769.16NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
actin cytoskeleton organization  (IMP)
action potential  (IMP)
amino acid transport  (IMP)
amyloid precursor protein catabolic process  (ISO)
arginine transport  (IBA,ISO)
associative learning  (IMP)
autophagosome maturation  (IMP)
autophagosome-lysosome fusion  (IMP)
cell migration  (IMP)
cellular water homeostasis  (IMP)
endocytosis  (IMP)
glycerophospholipid biosynthetic process  (ISO)
glycolipid transport  (ISO)
Golgi to lysosome transport  (ISO)
ionotropic glutamate receptor signaling pathway  (IMP)
learning or memory  (IMP)
lysosomal lumen acidification  (IBA,ISO)
lysosomal lumen pH elevation  (ISO)
lysosomal protein catabolic process  (IMP)
lysosome organization  (IBA,IMP)
macroautophagy  (IMP)
membrane organization  (IMP)
negative regulation of apoptotic process  (IMP,ISO)
negative regulation of catalytic activity  (IMP)
negative regulation of neuron apoptotic process  (IDA)
negative regulation of proteolysis  (IMP)
neuromuscular process controlling balance  (IMP)
neurotransmitter metabolic process  (IMP)
phagosome-lysosome docking  (IMP)
phagosome-lysosome fusion  (IMP)
plasma membrane raft organization  (IMP)
positive regulation of caveolin-mediated endocytosis  (IMP)
positive regulation of Golgi to plasma membrane protein transport  (IMP)
positive regulation of pinocytosis  (IMP)
positive regulation of protein phosphorylation  (IMP)
protein localization to membrane  (IMP)
protein localization to plasma membrane  (IMP)
protein processing  (IMP)
receptor-mediated endocytosis  (ISO)
regulation of arginine biosynthetic process  (IMP)
regulation of autophagosome maturation  (IMP)
regulation of autophagosome size  (IMP)
regulation of autophagy  (IMP)
regulation of cellular response to osmotic stress  (ISO)
regulation of cytoskeleton organization  (ISO)
regulation of cytosolic calcium ion concentration  (IDA)
regulation of fibroblast migration  (ISO)
regulation of filopodium assembly  (IMP)
regulation of gene expression  (ISO)
regulation of intracellular pH  (IBA)
regulation of modification of synaptic structure  (IMP)
regulation of phagosome maturation  (IMP)
regulation of protein localization to plasma membrane  (IMP)
regulation of protein processing  (ISO)
regulation of short-term neuronal synaptic plasticity  (IMP)
regulation of synaptic transmission, GABAergic  (IMP)
regulation of synaptic transmission, glutamatergic  (IMP)
renal potassium excretion  (IMP)
vesicle transport along microtubule  (ISO)

Molecular Function

Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
abnormal astrocyte morphology  (IAGP)
abnormal basal ganglion morphology  (IAGP)
abnormal brain morphology  (IAGP)
abnormal brainstem morphology  (IAGP)
abnormal cell adhesion  (IAGP)
abnormal cerebellar Purkinje cell layer  (IAGP)
abnormal cerebral cortex morphology  (IAGP)
abnormal dendritic cell physiology  (IAGP)
abnormal dentate gyrus morphology  (IAGP)
abnormal enzyme/coenzyme activity  (IAGP)
abnormal fertility/fecundity  (IAGP)
abnormal gait  (IAGP)
abnormal hepatocyte morphology  (IAGP)
abnormal hippocampus morphology  (IAGP)
abnormal hippocampus pyramidal cell morphology  (IAGP)
abnormal kidney morphology  (IAGP)
abnormal liver morphology  (IAGP)
abnormal locomotor activation  (IAGP)
abnormal lysosome morphology  (IAGP)
abnormal macrophage physiology  (IAGP)
abnormal nervous system morphology  (IAGP)
abnormal postnatal subventricular zone morphology  (IAGP)
abnormal professional antigen presenting cell morphology  (IAGP)
abnormal retina morphology  (IAGP)
abnormal retinal ganglion cell morphology  (IAGP)
abnormal retinal ganglion layer morphology  (IAGP)
abnormal retinal inner nuclear layer morphology  (IAGP)
abnormal retinal neuronal layer morphology  (IAGP)
astrocytosis  (IAGP)
decreased body weight  (IAGP)
decreased macrophage cytokine production  (IAGP)
decreased retinal photoreceptor cell number  (IAGP)
decreased urine osmolality  (IAGP)
decreased urine potassium level  (IAGP)
gliosis  (IAGP)
impaired coordination  (IAGP)
increased blood osmolality  (IAGP)
increased circulating potassium level  (IAGP)
increased microglial cell activation  (IAGP)
increased susceptibility to pharmacologically induced seizures  (IAGP)
limb grasping  (IAGP)
polydipsia  (IAGP)
polyuria  (IAGP)
premature death  (IAGP)
retinal degeneration  (IAGP)
short stride length  (IAGP)
tremors  (IAGP)
References

Additional References at PubMed
PMID:10191118   PMID:10349636   PMID:10440905   PMID:11042159   PMID:11076861   PMID:11217851   PMID:11590129   PMID:11988019   PMID:12023984   PMID:12366726   PMID:12374761   PMID:12477932  
PMID:12559844   PMID:12633880   PMID:12763292   PMID:12939285   PMID:14610273   PMID:14622109   PMID:14651853   PMID:15326100   PMID:15374749   PMID:15588329   PMID:15598649   PMID:15647513  
PMID:15782199   PMID:15823567   PMID:15885820   PMID:16006136   PMID:16141072   PMID:16141073   PMID:16239221   PMID:16412658   PMID:16483786   PMID:16602821   PMID:16714284   PMID:17070688  
PMID:17189291   PMID:17617387   PMID:17855597   PMID:17868323   PMID:17931875   PMID:17962032   PMID:17962056   PMID:17963751   PMID:18287559   PMID:18317235   PMID:18621045   PMID:18678598  
PMID:18688960   PMID:18768693   PMID:18799693   PMID:19230832   PMID:19243453   PMID:19284480   PMID:19345705   PMID:19941651   PMID:20219947   PMID:20850431   PMID:20875858   PMID:21267068  
PMID:21315126   PMID:21677750   PMID:21873635   PMID:22683643   PMID:22701626   PMID:23279039   PMID:23707513   PMID:23798013   PMID:24227717   PMID:24300334   PMID:24664736   PMID:24736558  
PMID:24792215   PMID:25051496   PMID:25303899   PMID:25878248   PMID:25962910   PMID:26026925   PMID:26035843   PMID:26450516   PMID:26700800   PMID:26748992   PMID:26775238   PMID:27101989  
PMID:27453211   PMID:28042098   PMID:28165011   PMID:28963550   PMID:29135436   PMID:29660499   PMID:29780879   PMID:29873075   PMID:30042155   PMID:30086172   PMID:30837943   PMID:31025705  
PMID:31040178   PMID:31572287   PMID:31628420   PMID:32579115   PMID:32592935   PMID:32601357   PMID:32719489   PMID:33006978  


Genomics

Comparative Map Data
Cln3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm397126,170,379 - 126,184,989 (-)NCBIGRCm39mm39
GRCm39 Ensembl7126,170,379 - 126,184,989 (-)Ensembl
GRCm387126,571,207 - 126,585,817 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl7126,571,207 - 126,585,817 (-)EnsemblGRCm38mm10GRCm38
MGSCv377133,714,914 - 133,727,794 (-)NCBIGRCm37mm9NCBIm37
MGSCv367126,362,548 - 126,374,368 (-)NCBImm8
Celera7126,395,665 - 126,433,408 (-)NCBICelera
Cytogenetic Map7F3NCBI
cM Map769.16NCBI
CLN3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1628,474,111 - 28,495,575 (-)EnsemblGRCh38hg38GRCh38
GRCh381628,466,653 - 28,492,082 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh371628,477,974 - 28,503,403 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361628,396,101 - 28,411,124 (-)NCBINCBI36hg18NCBI36
Build 341628,396,101 - 28,410,717NCBI
Celera1627,700,143 - 27,715,170 (+)NCBI
Cytogenetic Map16p12.1NCBI
HuRef1626,514,259 - 26,529,549 (-)NCBIHuRef
CHM1_11629,489,652 - 29,515,233 (-)NCBICHM1_1
Cln3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21181,156,071 - 181,169,458 (-)NCBI
Rnor_6.0 Ensembl1197,986,385 - 197,997,664 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01197,986,384 - 197,999,726 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01204,965,144 - 204,978,485 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41185,713,096 - 185,724,375 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11185,862,977 - 185,874,256 (-)NCBI
Celera1178,814,090 - 178,825,369 (-)NCBICelera
Cytogenetic Map1q36NCBI
Cln3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554936,696,241 - 6,707,849 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554936,696,520 - 6,707,849 (-)NCBIChiLan1.0ChiLan1.0
CLN3
(Pan paniscus - bonobo/pygmy chimpanzee)
No map positions available.
CLN3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1618,252,543 - 18,266,033 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl618,254,139 - 18,266,033 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha619,832,816 - 19,844,709 (+)NCBI
ROS_Cfam_1.0618,390,161 - 18,402,054 (+)NCBI
UMICH_Zoey_3.1618,189,180 - 18,201,073 (+)NCBI
UNSW_CanFamBas_1.0618,104,266 - 18,116,159 (+)NCBI
UU_Cfam_GSD_1.0618,420,341 - 18,432,234 (+)NCBI
Cln3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024409344123,857,474 - 123,870,439 (-)NCBI
SpeTri2.0NW_00493650111,955,334 - 11,967,338 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CLN3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl318,433,559 - 18,450,293 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1318,433,564 - 18,450,296 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
CLN3
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1526,320,132 - 26,343,009 (-)NCBI
ChlSab1.1 Ensembl526,320,061 - 26,337,402 (-)Ensembl
Vero_WHO_p1.0NW_0236660683,236,192 - 3,251,867 (+)NCBI
Cln3
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462478212,995,277 - 13,004,980 (-)NCBI

Position Markers
AI323623  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm387126,580,078 - 126,580,192UniSTSGRCm38
MGSCv377133,723,592 - 133,723,706UniSTSGRCm37
Cytogenetic Map7F3UniSTS
cM Map760.4UniSTS
Whitehead/MRC_RH71289.57UniSTS
U47106  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm387126,572,113 - 126,572,218UniSTSGRCm38
MGSCv377133,715,627 - 133,715,732UniSTSGRCm37
Cytogenetic Map7F3UniSTS
cM Map760.4UniSTS
Whitehead_YAC7 UniSTS


QTLs in Region (GRCm38)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
25314307Mlh1fc2_mMLH1 foci count 2 (mouse)76500000133900000Mouse
1301158Eae4_msusceptibility to experimental allergic encephalomyelitis 4 (mouse)Not determined719413473142366067Mouse
27226751Femd5_mfemur midshaft diameter 5, 10 week (mouse)753600000143600000Mouse
27226778Femd11_mfemur midshaft diameter 11, 16 week (mouse)757300000134400000Mouse
26884440Sklq4_mskull length QTL 4, 5 week (mouse)765600000126900000Mouse
27095933Ulnl3_mulna length 3, 5 week (mouse)773500000143600000Mouse
26884398Humsd6_mhumerus midshaft diameter 6, 16 week (mouse)779000000137300000Mouse
27095930Ulnl10_mulna length 10, 16 week (mouse)781200000127100000Mouse
27095903Scvln10_msacral vertebrae length 2, 10 week (mouse)781800000126900000Mouse
27226765Tibl18_mtibia length 18, 16 week (mouse)782200000126900000Mouse
27226769Tibl12_mtibia length 12, 10 week (mouse)787600000126900000Mouse
27226790Feml15_mfemur length 15, 10 week (mouse)787600000126900000Mouse
1300528Ssial3_msusceptibility to sialadenitis 3 (mouse)Not determined793792641127792834Mouse
1301478Eae26_msusceptibility to experimental allergic encephalomyelitis 26 (mouse)Not determined798565687132565775Mouse
13524850Asrq7_macoustic startle response 7 (mouse)798795739132795739Mouse
10412104Tons2_mtongue size 2 (mouse)Not determined7100238481134238481Mouse
11039524Tbbr3_mTrypanosoma brucei brucei response 3 (mouse)7101151499135151620Mouse
1301447Fembm3_mfemoral bone morphometry 3 (mouse)Not determined7101394038135394119Mouse
1357460Vtbt4_mvertebral trabecular bone trait 4 (mouse)Not determined7102094158136094307Mouse
1301105Cfld4_mcystic fibrosis lung disease 4 (mouse)Not determined7102094158136094307Mouse
1300721Cfbw3_mcystic fibrosis body weight 3 (mouse)Not determined7102094158136094307Mouse
4142312Nilac4_mnicotine induced locomotor activity 4 (mouse)Not determined7102885996136886157Mouse
5491192Mobq1_mmultigenic obesity QTL 1 (mouse)Not determined7105651440139651588Mouse
13524852Asrq7a_macoustic startle response 7a (mouse)7105750785139750785Mouse
14700684Civq1_mcerebral infarct volume QTL 1 (mouse)7110108163144108163Mouse
14700687Civq5_mcerebral infarct volume QTL 5 (mouse)7110108163144108163Mouse
14700688Civq6_mcerebral infarct volume QTL 6 (mouse)7110108163144108163Mouse
10402499Lmr21_mleishmaniasis resistance 21 (mouse)Not determined7111365511145365612Mouse
11059562Lmr21b_mleishmaniasis resistance 21b (mouse)7111365511145365612Mouse
1301898Alcp14_malcohol preference locus 14 (mouse)Not determined7111564398145441459Mouse
1302032Alcp12_malcohol preference locus 12 (mouse)Not determined7111564398145441459Mouse
1300670Sluc19_msusceptibility to lung cancer 19 (mouse)Not determined7111564398145441459Mouse
4142444Femwf5_mfemur work to failure 5 (mouse)Not determined112950524145441459Mouse
1300747Skts2_mskin tumor susceptibility 2 (mouse)Not determined7113321003145441459Mouse
38501072Stsl7_mSalmonella typhimurium susceptibility locus 7 (mouse)7116100000128900000Mouse
1300677Bmd9_mbone mineral density 9 (mouse)Not determined7117032360145441459Mouse
15092059Wogrme1_mweek one growth rate, maternal effect 1 (mouse)7117600000134500000Mouse
11059561Lmr21a_mleishmaniasis resistance 21a (mouse)7118151499128365612Mouse
1357711Adbg1_madult body growth 1 (mouse)Not determined7119094158144844577Mouse
1301773Stheal7_msoft tissue heal 7 (mouse)Not determined7119530844145441459Mouse
38501070Tip5_mtuberculosis immunophenotype 5, IFN-g level (mouse)7121000000130700000Mouse
1357613Bsbob2_mBSB obesity 2 (mouse)Not determined7122651440129217600Mouse
1301903Tlsm1_mthymic lymphoma susceptible 1 (mouse)Not determined7122651440135569172Mouse
38501066Tip2_mtuberculosis immunophenotype 2, spleen CFU (mouse)7124700000127300000Mouse
4141945Il4ppq_mIL-4 producing potential QTL (mouse)Not determined7124914439129217600Mouse

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:3488
Count of miRNA genes:791
Interacting mature miRNAs:1048
Transcripts:ENSMUST00000032962, ENSMUST00000084589, ENSMUST00000098036, ENSMUST00000116269, ENSMUST00000124177, ENSMUST00000125508, ENSMUST00000128049, ENSMUST00000128225, ENSMUST00000128970, ENSMUST00000134246, ENSMUST00000134406, ENSMUST00000134498, ENSMUST00000138285, ENSMUST00000139766, ENSMUST00000147086, ENSMUST00000150311, ENSMUST00000150587, ENSMUST00000150917, ENSMUST00000153790
Prediction methods:Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


Expression


Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001146311 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001329789 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_009907 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006507288 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006507292 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006507293 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017321963 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_030242058 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_036152620 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_036152621 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_036152622 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_036152623 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_036152624 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_036152625 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_004934004 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC125169 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK078976 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK134036 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK184160 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK189026 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK217815 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC047120 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC058753 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC060306 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC080759 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BE624119 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH466531 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  U47106 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  U68064 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  U92811 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSMUST00000032962   ⟹   ENSMUSP00000032962
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl7126,571,400 - 126,583,247 (-)Ensembl
RefSeq Acc Id: ENSMUST00000084589   ⟹   ENSMUSP00000081636
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl7126,571,207 - 126,585,817 (-)Ensembl
RefSeq Acc Id: ENSMUST00000098036   ⟹   ENSMUSP00000095644
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl7126,572,086 - 126,583,190 (-)Ensembl
RefSeq Acc Id: ENSMUST00000116269   ⟹   ENSMUSP00000111973
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl7126,571,400 - 126,584,280 (-)Ensembl
RefSeq Acc Id: ENSMUST00000124177
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl7126,572,122 - 126,577,863 (-)Ensembl
RefSeq Acc Id: ENSMUST00000125508   ⟹   ENSMUSP00000117561
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl7126,579,409 - 126,583,523 (-)Ensembl
RefSeq Acc Id: ENSMUST00000128049
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl7126,583,322 - 126,584,786 (-)Ensembl
RefSeq Acc Id: ENSMUST00000128225
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl7126,579,211 - 126,583,226 (-)Ensembl
RefSeq Acc Id: ENSMUST00000128970   ⟹   ENSMUSP00000114901
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl7126,579,263 - 126,584,220 (-)Ensembl
RefSeq Acc Id: ENSMUST00000134246
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl7126,580,270 - 126,583,114 (-)Ensembl
RefSeq Acc Id: ENSMUST00000134406
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl7126,580,831 - 126,583,316 (-)Ensembl
RefSeq Acc Id: ENSMUST00000134498
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl7126,581,513 - 126,583,342 (-)Ensembl
RefSeq Acc Id: ENSMUST00000138285
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl7126,572,090 - 126,575,087 (-)Ensembl
RefSeq Acc Id: ENSMUST00000139766
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl7126,572,108 - 126,572,728 (-)Ensembl
RefSeq Acc Id: ENSMUST00000147086   ⟹   ENSMUSP00000114555
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl7126,581,715 - 126,583,554 (-)Ensembl
RefSeq Acc Id: ENSMUST00000150311   ⟹   ENSMUSP00000116160
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl7126,581,661 - 126,584,578 (-)Ensembl
RefSeq Acc Id: ENSMUST00000150587   ⟹   ENSMUSP00000118054
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl7126,581,658 - 126,583,566 (-)Ensembl
RefSeq Acc Id: ENSMUST00000150917   ⟹   ENSMUSP00000138688
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl7126,579,247 - 126,583,362 (-)Ensembl
RefSeq Acc Id: ENSMUST00000153790
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl7126,578,359 - 126,584,307 (-)Ensembl
RefSeq Acc Id: NM_001146311   ⟹   NP_001139783
RefSeq Status: REVIEWED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm397126,170,379 - 126,184,989 (-)NCBI
GRCm387126,571,207 - 126,585,817 (-)NCBI
MGSCv377133,714,914 - 133,727,794 (-)RGD
Celera7126,395,665 - 126,433,408 (-)ENTREZGENE
cM Map7 ENTREZGENE
Sequence:
RefSeq Acc Id: NM_001329789   ⟹   NP_001316718
RefSeq Status: REVIEWED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm397126,170,379 - 126,182,408 (-)NCBI
GRCm387126,571,207 - 126,583,236 (-)NCBI
Sequence:
RefSeq Acc Id: NM_009907   ⟹   NP_034037
RefSeq Status: REVIEWED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm397126,170,379 - 126,182,408 (-)NCBI
GRCm387126,571,207 - 126,583,236 (-)NCBI
MGSCv377133,714,914 - 133,727,794 (-)RGD
Celera7126,395,665 - 126,433,408 (-)ENTREZGENE
cM Map7 ENTREZGENE
Sequence:
RefSeq Acc Id: XM_006507288   ⟹   XP_006507351
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm397126,171,258 - 126,183,725 (-)NCBI
GRCm387126,572,086 - 126,584,585 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006507292   ⟹   XP_006507355
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm397126,171,258 - 126,183,745 (-)NCBI
GRCm387126,572,086 - 126,584,585 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006507293   ⟹   XP_006507356
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm397126,171,258 - 126,183,725 (-)NCBI
GRCm387126,572,086 - 126,584,585 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017321963   ⟹   XP_017177452
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm397126,171,258 - 126,182,751 (-)NCBI
GRCm387126,572,086 - 126,584,585 (-)NCBI
Sequence:
RefSeq Acc Id: XM_030242058   ⟹   XP_030097918
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm397126,171,258 - 126,182,751 (-)NCBI
GRCm387126,572,086 - 126,583,576 (-)NCBI
Sequence:
RefSeq Acc Id: XM_036152620   ⟹   XP_036008513
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm397126,171,258 - 126,183,725 (-)NCBI
RefSeq Acc Id: XM_036152621   ⟹   XP_036008514
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm397126,171,258 - 126,183,953 (-)NCBI
RefSeq Acc Id: XM_036152622   ⟹   XP_036008515
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm397126,171,258 - 126,184,553 (-)NCBI
RefSeq Acc Id: XM_036152623   ⟹   XP_036008516
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm397126,171,258 - 126,182,791 (-)NCBI
RefSeq Acc Id: XM_036152624   ⟹   XP_036008517
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm397126,171,258 - 126,183,721 (-)NCBI
RefSeq Acc Id: XM_036152625   ⟹   XP_036008518
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm397126,171,258 - 126,183,726 (-)NCBI
RefSeq Acc Id: XR_004934004
RefSeq Status:
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm397126,171,258 - 126,183,731 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001139783 (Get FASTA)   NCBI Sequence Viewer  
  NP_001316718 (Get FASTA)   NCBI Sequence Viewer  
  NP_034037 (Get FASTA)   NCBI Sequence Viewer  
  XP_006507351 (Get FASTA)   NCBI Sequence Viewer  
  XP_006507355 (Get FASTA)   NCBI Sequence Viewer  
  XP_006507356 (Get FASTA)   NCBI Sequence Viewer  
  XP_017177452 (Get FASTA)   NCBI Sequence Viewer  
  XP_030097918 (Get FASTA)   NCBI Sequence Viewer  
  XP_036008513 (Get FASTA)   NCBI Sequence Viewer  
  XP_036008514 (Get FASTA)   NCBI Sequence Viewer  
  XP_036008515 (Get FASTA)   NCBI Sequence Viewer  
  XP_036008516 (Get FASTA)   NCBI Sequence Viewer  
  XP_036008517 (Get FASTA)   NCBI Sequence Viewer  
  XP_036008518 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAB07595 (Get FASTA)   NCBI Sequence Viewer  
  AAB69983 (Get FASTA)   NCBI Sequence Viewer  
  AAC52957 (Get FASTA)   NCBI Sequence Viewer  
  AAH47120 (Get FASTA)   NCBI Sequence Viewer  
  AAH58753 (Get FASTA)   NCBI Sequence Viewer  
  AAH60306 (Get FASTA)   NCBI Sequence Viewer  
  AAH80759 (Get FASTA)   NCBI Sequence Viewer  
  BAC37491 (Get FASTA)   NCBI Sequence Viewer  
  EDL17389 (Get FASTA)   NCBI Sequence Viewer  
  EDL17390 (Get FASTA)   NCBI Sequence Viewer  
  EDL17391 (Get FASTA)   NCBI Sequence Viewer  
  EDL17392 (Get FASTA)   NCBI Sequence Viewer  
  EDL17393 (Get FASTA)   NCBI Sequence Viewer  
  EDL17394 (Get FASTA)   NCBI Sequence Viewer  
  EDL17395 (Get FASTA)   NCBI Sequence Viewer  
  EDL17396 (Get FASTA)   NCBI Sequence Viewer  
  EDL17397 (Get FASTA)   NCBI Sequence Viewer  
  EDL17398 (Get FASTA)   NCBI Sequence Viewer  
  Q61124 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_034037   ⟸   NM_009907
- Peptide Label: isoform 1
- UniProtKB: Q61124 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: NP_001139783   ⟸   NM_001146311
- Peptide Label: isoform 1
- UniProtKB: Q61124 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006507351   ⟸   XM_006507288
- Peptide Label: isoform X1
- UniProtKB: Q61124 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006507356   ⟸   XM_006507293
- Peptide Label: isoform X1
- UniProtKB: Q61124 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006507355   ⟸   XM_006507292
- Peptide Label: isoform X1
- UniProtKB: Q61124 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_017177452   ⟸   XM_017321963
- Peptide Label: isoform X1
- UniProtKB: Q61124 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: NP_001316718   ⟸   NM_001329789
- Peptide Label: isoform 2
- UniProtKB: Q6PAH4 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_030097918   ⟸   XM_030242058
- Peptide Label: isoform X3
RefSeq Acc Id: ENSMUSP00000118054   ⟸   ENSMUST00000150587
RefSeq Acc Id: ENSMUSP00000138688   ⟸   ENSMUST00000150917
RefSeq Acc Id: ENSMUSP00000032962   ⟸   ENSMUST00000032962
RefSeq Acc Id: ENSMUSP00000116160   ⟸   ENSMUST00000150311
RefSeq Acc Id: ENSMUSP00000117561   ⟸   ENSMUST00000125508
RefSeq Acc Id: ENSMUSP00000081636   ⟸   ENSMUST00000084589
RefSeq Acc Id: ENSMUSP00000114555   ⟸   ENSMUST00000147086
RefSeq Acc Id: ENSMUSP00000114901   ⟸   ENSMUST00000128970
RefSeq Acc Id: ENSMUSP00000095644   ⟸   ENSMUST00000098036
RefSeq Acc Id: ENSMUSP00000111973   ⟸   ENSMUST00000116269
RefSeq Acc Id: XP_036008515   ⟸   XM_036152622
- Peptide Label: isoform X1
RefSeq Acc Id: XP_036008514   ⟸   XM_036152621
- Peptide Label: isoform X1
RefSeq Acc Id: XP_036008518   ⟸   XM_036152625
- Peptide Label: isoform X3
RefSeq Acc Id: XP_036008513   ⟸   XM_036152620
- Peptide Label: isoform X1
RefSeq Acc Id: XP_036008517   ⟸   XM_036152624
- Peptide Label: isoform X2
RefSeq Acc Id: XP_036008516   ⟸   XM_036152623
- Peptide Label: isoform X1

Promoters
RGD ID:8665551
Promoter ID:EPDNEW_M10807
Type:initiation region
Name:Cln3_2
Description:Mus musculus ceroid lipofuscinosis, neuronal 3, juvenile (Batten,Spielmeyer-Vogt disease) , transcript variant 1, mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_M10808  EPDNEW_M10809  
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm387126,583,221 - 126,583,281EPDNEW
RGD ID:8665553
Promoter ID:EPDNEW_M10808
Type:initiation region
Name:Cln3_1
Description:Mus musculus ceroid lipofuscinosis, neuronal 3, juvenile (Batten,Spielmeyer-Vogt disease) , transcript variant 1, mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_M10807  EPDNEW_M10809  
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm387126,583,362 - 126,583,422EPDNEW
RGD ID:8665555
Promoter ID:EPDNEW_M10809
Type:initiation region
Name:Cln3_3
Description:Mus musculus ceroid lipofuscinosis, neuronal 3, juvenile (Batten,Spielmeyer-Vogt disease) , transcript variant 1, mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_M10807  EPDNEW_M10808  
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm387126,584,390 - 126,584,450EPDNEW
RGD ID:6840853
Promoter ID:MM_KWN:52678
Type:Non-CpG
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:BoneMarrow_0Hour,   BoneMarrow_2Hour,   BoneMarrow_4Hour,   Brain
Transcripts:OTTMUST00000047452
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv367133,715,916 - 133,717,187 (-)MPROMDB
RGD ID:6840854
Promoter ID:MM_KWN:52679
Type:Non-CpG
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:BoneMarrow_0Hour,   BoneMarrow_2Hour,   BoneMarrow_4Hour
Transcripts:OTTMUST00000047453
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv367133,718,666 - 133,719,367 (-)MPROMDB
RGD ID:6840851
Promoter ID:MM_KWN:52680
Type:Non-CpG
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:BoneMarrow_0Hour,   BoneMarrow_2Hour,   BoneMarrow_4Hour
Transcripts:OTTMUST00000047440
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv367133,721,266 - 133,722,102 (-)MPROMDB
RGD ID:6840855
Promoter ID:MM_KWN:52681
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:BoneMarrow_0Hour,   BoneMarrow_4Hour,   MEF_B4,   MEF_B6
Transcripts:ENSMUST00000032962,   ENSMUST00000106380,   ENSMUST00000116269,   OTTMUST00000047444,   OTTMUST00000047445,   OTTMUST00000047446,   OTTMUST00000047447,   OTTMUST00000047448,   OTTMUST00000047449,   OTTMUST00000047450,   OTTMUST00000047451,   UC009JRY.1
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv367133,726,466 - 133,726,992 (-)MPROMDB
RGD ID:6840881
Promoter ID:MM_KWN:52682
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:BoneMarrow_0Hour,   BoneMarrow_2Hour,   BoneMarrow_4Hour,   Brain,   ES_Cell,   Kidney,   Liver,   Lung,   MEF_B4,   MEF_B6
Transcripts:NM_001146311,   OTTMUST00000047439,   OTTMUST00000047441,   OTTMUST00000047442,   OTTMUST00000047443,   OTTMUST00000072962,   OTTMUST00000072963,   OTTMUST00000072964
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv367133,727,086 - 133,728,517 (-)MPROMDB
RGD ID:6840852
Promoter ID:MM_KWN:52683
Type:Non-CpG
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:BoneMarrow_0Hour,   BoneMarrow_2Hour,   BoneMarrow_4Hour,   Lung
Transcripts:ENSMUST00000084589
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv367133,728,964 - 133,729,464 (-)MPROMDB

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:107537 AgrOrtholog
Ensembl Genes ENSMUSG00000030720 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSMUSP00000032962 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSMUSP00000081636 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSMUSP00000095644 ENTREZGENE, UniProtKB/TrEMBL
  ENSMUSP00000111973 UniProtKB/Swiss-Prot
  ENSMUSP00000114555 UniProtKB/TrEMBL
  ENSMUSP00000114901 UniProtKB/TrEMBL
  ENSMUSP00000116160 UniProtKB/TrEMBL
  ENSMUSP00000117561 UniProtKB/TrEMBL
  ENSMUSP00000118054 UniProtKB/TrEMBL
  ENSMUSP00000138688 UniProtKB/TrEMBL
Ensembl Transcript ENSMUST00000032962 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSMUST00000084589 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSMUST00000098036 ENTREZGENE, UniProtKB/TrEMBL
  ENSMUST00000116269 UniProtKB/Swiss-Prot
  ENSMUST00000125508 UniProtKB/TrEMBL
  ENSMUST00000128970 UniProtKB/TrEMBL
  ENSMUST00000147086 UniProtKB/TrEMBL
  ENSMUST00000150311 UniProtKB/TrEMBL
  ENSMUST00000150587 UniProtKB/TrEMBL
  ENSMUST00000150917 UniProtKB/TrEMBL
InterPro Battenin_disease_Cln3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Battenin_disease_Cln3_subgr UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  MFS_trans_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report mmu:12752 UniProtKB/Swiss-Prot
MGD MGI:107537 ENTREZGENE
NCBI Gene 12752 ENTREZGENE
PANTHER PTHR10981 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam CLN3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Cln3 PhenoGen
PIRSF CLN3_BTN1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PRINTS BATTENIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF103473 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt CLN3_MOUSE UniProtKB/Swiss-Prot
  D3YUU4_MOUSE UniProtKB/TrEMBL
  D3YVA8_MOUSE UniProtKB/TrEMBL
  D3YZN0_MOUSE UniProtKB/TrEMBL
  D3Z448_MOUSE UniProtKB/TrEMBL
  D3Z6L5_MOUSE UniProtKB/TrEMBL
  Q61124 ENTREZGENE
  Q6PAH4 ENTREZGENE, UniProtKB/TrEMBL
  Q811D1_MOUSE UniProtKB/TrEMBL
  Q8C5B1_MOUSE UniProtKB/TrEMBL
  S4R2L1_MOUSE UniProtKB/TrEMBL
UniProt Secondary O35934 UniProtKB/Swiss-Prot
  P70400 UniProtKB/Swiss-Prot