Cln6 (CLN6 transmembrane ER protein) - Rat Genome Database

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Gene: Cln6 (CLN6 transmembrane ER protein) Ictidomys tridecemlineatus
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Symbol: Cln6
Name: CLN6 transmembrane ER protein
RGD ID: 12634885
Description: ENCODES a protein that exhibits lysophosphatidic acid binding (ortholog); protein homodimerization activity (ortholog); sulfatide binding (ortholog); INVOLVED IN cellular macromolecule catabolic process (ortholog); cholesterol metabolic process (ortholog); ganglioside metabolic process (ortholog); ASSOCIATED WITH agenesis of the corpus callosum with peripheral neuropathy (ortholog); Animal Disease Models (ortholog); Atrophy (ortholog); FOUND IN early endosome (ortholog); endoplasmic reticulum (ortholog); endoplasmic reticulum lumen (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Also known as: ceroid-lipofuscinosis neuronal protein 6; ceroid-lipofuscinosis neuronal protein 6 homolog; ceroid-lipofuscinosis, neuronal 6, late infantile; ceroid-lipofuscinosis, neuronal 6, late infantile, variant
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: SpeTri2.0 - Squirrel SpeTri2.0 Assembly
Position:
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024408640110,222,378 - 110,236,565 (-)NCBI
SpeTri2.0NW_00493647128,069,058 - 28,084,607 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References

Genomics

Comparative Map Data
Cln6
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024408640110,222,378 - 110,236,565 (-)NCBI
SpeTri2.0NW_00493647128,069,058 - 28,084,607 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CLN6
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1568,206,992 - 68,257,211 (-)EnsemblGRCh38hg38GRCh38
GRCh381568,206,992 - 68,229,728 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh371568,499,330 - 68,522,066 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361566,286,384 - 66,309,079 (-)NCBINCBI36hg18NCBI36
Build 341566,286,385 - 66,309,079NCBI
Celera1545,384,244 - 45,406,985 (-)NCBI
Cytogenetic Map15q23NCBI
HuRef1545,330,044 - 45,352,792 (-)NCBIHuRef
CHM1_11568,617,284 - 68,640,038 (-)NCBICHM1_1
Cln6
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39962,746,067 - 62,759,288 (+)NCBIGRCm39mm39
GRCm39 Ensembl962,746,067 - 62,759,288 (+)Ensembl
GRCm38962,838,785 - 62,852,006 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl962,838,785 - 62,852,006 (+)EnsemblGRCm38mm10GRCm38
MGSCv37962,686,594 - 62,699,809 (+)NCBIGRCm37mm9NCBIm37
MGSCv36962,636,793 - 62,650,008 (+)NCBImm8
Celera960,064,132 - 60,077,378 (+)NCBICelera
Cytogenetic Map9BNCBI
cM Map933.89NCBI
Cln6
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2863,303,356 - 63,318,360 (+)NCBI
Rnor_6.0 Ensembl867,733,215 - 67,748,172 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0867,733,215 - 67,748,170 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0867,461,962 - 67,476,917 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4866,987,057 - 67,002,013 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1866,996,226 - 67,037,937 (+)NCBI
Celera862,718,317 - 62,733,273 (+)NCBICelera
Cytogenetic Map8q24NCBI
Cln6
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554507,876,522 - 7,886,581 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554507,876,572 - 7,885,305 (+)NCBIChiLan1.0ChiLan1.0
CLN6
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11565,425,472 - 65,436,699 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1565,425,472 - 65,985,242 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01547,156,583 - 47,215,805 (-)NCBIMhudiblu_PPA_v0panPan3
CLN6
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13032,246,394 - 32,264,251 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3032,246,411 - 32,264,240 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3032,180,849 - 32,198,636 (-)NCBI
ROS_Cfam_1.03032,442,020 - 32,459,741 (-)NCBI
UMICH_Zoey_3.13032,370,298 - 32,388,114 (-)NCBI
UNSW_CanFamBas_1.03032,432,245 - 32,450,063 (-)NCBI
UU_Cfam_GSD_1.03032,678,083 - 32,695,922 (-)NCBI
CLN6
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1166,107,228 - 166,126,584 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11166,107,895 - 166,126,054 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21183,878,601 - 183,893,266 (-)NCBISscrofa10.2Sscrofa10.2susScr3
CLN6
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12615,259,186 - 15,278,249 (+)NCBI
Vero_WHO_p1.0NW_023666048126,190,316 - 126,209,504 (-)NCBI
Cln6
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247814,866,896 - 4,879,321 (+)NCBI


Expression


Sequence


Reference Sequences
RefSeq Acc Id: XM_005316730   ⟹   XP_005316787
RefSeq Status:
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_024408640110,222,378 - 110,236,563 (-)NCBI
SpeTri2.0NW_00493647128,069,058 - 28,084,607 (-)NCBI
Sequence:
RefSeq Acc Id: XM_040275806   ⟹   XP_040131740
RefSeq Status:
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_024408640110,222,378 - 110,236,564 (-)NCBI
RefSeq Acc Id: XM_040275807   ⟹   XP_040131741
RefSeq Status:
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_024408640110,222,378 - 110,236,565 (-)NCBI
Protein Sequences
Protein RefSeqs XP_005316787 (Get FASTA)   NCBI Sequence Viewer  
  XP_040131740 (Get FASTA)   NCBI Sequence Viewer  
  XP_040131741 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein KAG3262151 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: XP_005316787   ⟸   XM_005316730
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_040131741   ⟸   XM_040275807
- Peptide Label: isoform X3
RefSeq Acc Id: XP_040131740   ⟸   XM_040275806
- Peptide Label: isoform X2


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSTOG00000015540 ENTREZGENE
Ensembl Protein ENSSTOP00000013910 ENTREZGENE
NCBI Gene Cln6 ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2019-01-29 Cln6  CLN6 transmembrane ER protein    CLN6, transmembrane ER protein  Symbol and/or name change 5135510 APPROVED
2017-06-06 Cln6  CLN6, transmembrane ER protein    ceroid-lipofuscinosis, neuronal 6, late infantile, variant  Symbol and/or name change 5135510 APPROVED