Clcn5 (chloride voltage-gated channel 5) - Rat Genome Database

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Gene: Clcn5 (chloride voltage-gated channel 5) Ictidomys tridecemlineatus
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Symbol: Clcn5
Name: chloride voltage-gated channel 5
RGD ID: 12507452
Description: ENCODES a protein that exhibits voltage-gated chloride channel activity (ortholog); INVOLVED IN chloride transport (ortholog); endocytosis (ortholog); ASSOCIATED WITH autistic disorder (ortholog); Bethlem Myopathy 1A (ortholog); congenital disorder of glycosylation type IIm (ortholog); FOUND IN endosome (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: chloride voltage-gated channel 5, transcript variant X1; chloride voltage-gated channel 5, transcript variant X2; H(+)/Cl(-) exchange transporter 5; LOC110599504; uncharacterized LOC110599504
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_2X35,203,152 - 35,361,974 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049367211,445,779 - 1,596,814 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049367211,552,312 - 1,602,360 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
Clcn5
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2X35,203,152 - 35,361,974 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049367211,445,779 - 1,596,814 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049367211,552,312 - 1,602,360 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CLCN5
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38X49,922,596 - 50,099,230 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 EnsemblX49,922,596 - 50,099,235 (+)EnsemblGRCh38hg38GRCh38
GRCh37X49,687,206 - 49,863,887 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36X49,718,955 - 49,750,632 (+)NCBINCBI36Build 36hg18NCBI36
Build 34X49,537,191 - 49,560,557NCBI
CeleraX53,756,528 - 53,932,992 (+)NCBICelera
Cytogenetic MapXp11.23NCBI
HuRefX47,156,646 - 47,337,277 (+)NCBIHuRef
CHM1_1X49,766,989 - 49,943,526 (+)NCBICHM1_1
T2T-CHM13v2.0X49,238,534 - 49,416,892 (+)NCBIT2T-CHM13v2.0
Clcn5
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39X7,020,049 - 7,185,597 (-)NCBIGRCm39GRCm39mm39
GRCm39 EnsemblX7,020,049 - 7,185,597 (-)EnsemblGRCm39 Ensembl
GRCm38X7,153,810 - 7,319,358 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 EnsemblX7,153,810 - 7,319,358 (-)EnsemblGRCm38mm10GRCm38
MGSCv37X6,735,945 - 6,765,840 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36X6,316,432 - 6,345,645 (-)NCBIMGSCv36mm8
CeleraX4,285,826 - 4,305,500 (+)NCBICelera
Cytogenetic MapXA1.1NCBI
cM MapX3.21NCBI
Clcn5
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X17,857,260 - 18,011,844 (+)NCBIGRCr8
mRatBN7.2X15,185,380 - 15,339,977 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX15,185,451 - 15,334,264 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_UtxX20,124,321 - 20,150,472 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X19,932,829 - 19,958,980 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X16,197,788 - 16,223,939 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X16,170,585 - 16,196,691 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX16,050,780 - 16,196,789 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0X16,955,709 - 16,981,815 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X27,383,769 - 27,409,877 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1X27,437,237 - 27,463,346 (+)NCBI
CeleraX15,387,005 - 15,413,019 (+)NCBICelera
RH 3.4 MapX169.21RGD
Cytogenetic MapXq12NCBI
Clcn5
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555431,077,007 - 1,250,352 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049555431,076,988 - 1,256,352 (+)NCBIChiLan1.0ChiLan1.0
CLCN5
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2X51,350,269 - 51,512,532 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1X51,353,651 - 51,515,909 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0X42,137,523 - 42,299,716 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1X49,851,472 - 50,013,375 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 EnsemblX49,854,165 - 50,006,363 (+)Ensemblpanpan1.1panPan2
CLCN5
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1X42,705,789 - 42,860,701 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 EnsemblX42,704,627 - 42,853,812 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_TashaX17,082,898 - 17,238,055 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0X42,846,347 - 42,999,814 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 EnsemblX42,846,266 - 42,993,780 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1X42,830,221 - 42,985,707 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0X42,817,844 - 42,972,995 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0X42,912,678 - 43,067,849 (+)NCBIUU_Cfam_GSD_1.0
CLCN5
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 EnsemblX43,613,628 - 43,811,526 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1X43,779,016 - 43,809,472 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2X48,706,075 - 48,736,547 (+)NCBISscrofa10.2Sscrofa10.2susScr3
CLCN5
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1X46,772,176 - 46,934,886 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 EnsemblX46,772,305 - 46,927,861 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666086358,698 - 521,112 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Clcn5
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248931,390,344 - 1,577,110 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248931,390,417 - 1,581,457 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression


Sequence


RefSeq Acc Id: ENSSTOT00000013403   ⟹   ENSSTOP00000012009
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
SpeTri2.0 EnsemblNW_0049367211,445,779 - 1,596,168 (+)Ensembl
RefSeq Acc Id: ENSSTOT00000040486   ⟹   ENSSTOP00000025613
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
SpeTri2.0 EnsemblNW_0049367211,571,420 - 1,596,814 (+)Ensembl
RefSeq Acc Id: XM_005338694   ⟹   XP_005338751
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2X35,203,152 - 35,361,974 (+)NCBI
SpeTri2.0NW_0049367211,552,312 - 1,602,360 (+)NCBI
Sequence:
RefSeq Acc Id: XM_021735539   ⟹   XP_021591214
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2X35,331,012 - 35,361,974 (+)NCBI
SpeTri2.0NW_0049367211,571,405 - 1,596,814 (+)NCBI
Sequence:
RefSeq Acc Id: XM_040280724   ⟹   XP_040136658
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2X35,203,152 - 35,361,974 (+)NCBI
RefSeq Acc Id: XM_040280738   ⟹   XP_040136672
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2X35,330,990 - 35,361,974 (+)NCBI
RefSeq Acc Id: XP_005338751   ⟸   XM_005338694
- Peptide Label: isoform X1
- UniProtKB: I3MKY0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_021591214   ⟸   XM_021735539
- Peptide Label: isoform X2
- UniProtKB: A0A287CWG3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_040136658   ⟸   XM_040280724
- Peptide Label: isoform X1
- UniProtKB: I3MKY0 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_040136672   ⟸   XM_040280738
- Peptide Label: isoform X2
- UniProtKB: A0A287CWG3 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSSTOP00000012009   ⟸   ENSSTOT00000013403
RefSeq Acc Id: ENSSTOP00000025613   ⟸   ENSSTOT00000040486
Protein Domains
CBS


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSTOG00000013403 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSSTOT00000013403.3 UniProtKB/TrEMBL
  ENSSTOT00000040486.1 UniProtKB/TrEMBL
Gene3D-CATH 3.10.580.20 UniProtKB/TrEMBL
  3.90.1280.20 UniProtKB/TrEMBL
  Clc chloride channel UniProtKB/TrEMBL
InterPro CBS_dom UniProtKB/TrEMBL
  CBS_dom_sf UniProtKB/TrEMBL
  Cl-channel_core UniProtKB/TrEMBL
  Cl-channel_volt-gated UniProtKB/TrEMBL
  Cl_channel-5 UniProtKB/TrEMBL
NCBI Gene Clcn5 ENTREZGENE
PANTHER CHLORIDE CHANNEL PROTEIN UniProtKB/TrEMBL
  H(+)/CL(-) EXCHANGE TRANSPORTER 5 UniProtKB/TrEMBL
Pfam CBS UniProtKB/TrEMBL
  Voltage_CLC UniProtKB/TrEMBL
PRINTS CLCHANNEL UniProtKB/TrEMBL
  CLCHANNEL5 UniProtKB/TrEMBL
PROSITE CBS UniProtKB/TrEMBL
SMART CBS UniProtKB/TrEMBL
Superfamily-SCOP SSF54631 UniProtKB/TrEMBL
  SSF81340 UniProtKB/TrEMBL
UniProt A0A287CWG3 ENTREZGENE, UniProtKB/TrEMBL
  I3MKY0 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2021-03-25 Clcn5  chloride voltage-gated channel 5  LOC110599504  uncharacterized LOC110599504  Data merged from RGD:12919661 737654 PROVISIONAL