Ly6g5c (lymphocyte antigen 6 family member G5C) - Rat Genome Database

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Gene: Ly6g5c (lymphocyte antigen 6 family member G5C) Ictidomys tridecemlineatus
Analyze
Symbol: Ly6g5c
Name: lymphocyte antigen 6 family member G5C
RGD ID: 12698440
Description: ENCODES a protein that exhibits identical protein binding (inferred); ASSOCIATED WITH genetic disease (ortholog); megacolon (ortholog); proteasome-associated autoinflammatory syndrome 1 (ortholog); FOUND IN external side of plasma membrane (inferred); extracellular region (inferred); membrane (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: lymphocyte antigen 6 complex locus protein G5c; lymphocyte antigen 6 complex, locus G5C
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_02440494635,708,691 - 35,714,120 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049367271,848,505 - 1,852,398 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049367271,848,502 - 1,852,659 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References
Additional References at PubMed
PMID:30032202  


Genomics

Comparative Map Data
Ly6g5c
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494635,708,691 - 35,714,120 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049367271,848,505 - 1,852,398 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049367271,848,502 - 1,852,659 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LY6G5C
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38631,676,684 - 31,681,067 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl631,676,684 - 31,684,040 (-)EnsemblGRCh38hg38GRCh38
GRCh37631,644,461 - 31,648,844 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36631,752,440 - 31,756,120 (-)NCBINCBI36Build 36hg18NCBI36
Build 34631,752,439 - 31,756,120NCBI
Celera633,242,682 - 33,246,372 (-)NCBICelera
Cytogenetic Map6p21.33NCBI
HuRef631,430,686 - 31,434,376 (-)NCBIHuRef
CHM1_1631,646,597 - 31,650,286 (-)NCBICHM1_1
T2T-CHM13v2.0631,529,718 - 31,534,101 (-)NCBIT2T-CHM13v2.0
Ly6g5c
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391735,327,270 - 35,331,149 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1735,327,255 - 35,330,967 (+)EnsemblGRCm39 Ensembl
GRCm381735,108,294 - 35,112,173 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1735,108,279 - 35,111,991 (+)EnsemblGRCm38mm10GRCm38
MGSCv371735,245,245 - 35,248,898 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361734,716,356 - 34,720,009 (+)NCBIMGSCv36mm8
Celera1738,204,977 - 38,208,905 (+)NCBICelera
Cytogenetic Map17B1NCBI
cM Map1718.59NCBI
Ly6g5c
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8203,714,094 - 3,718,861 (-)NCBIGRCr8
mRatBN7.2203,709,426 - 3,713,940 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl203,709,529 - 3,713,608 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx204,408,433 - 4,412,527 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0203,770,489 - 3,774,583 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0204,308,362 - 4,312,653 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0205,100,415 - 5,104,631 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl205,100,415 - 5,104,494 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0207,173,674 - 7,177,753 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4203,773,183 - 3,777,262 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1203,773,409 - 3,777,489 (-)NCBI
Celera204,312,034 - 4,316,113 (+)NCBICelera
Cytogenetic Map20p12NCBI
Ly6g5c
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955437220,428 - 223,636 (-)EnsemblChiLan1.0
ChiLan1.0NW_004955437220,603 - 223,636 (-)NCBIChiLan1.0ChiLan1.0
LY6G5C
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2546,153,713 - 46,164,355 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1642,115,061 - 42,125,868 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0631,337,846 - 31,343,226 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1632,227,629 - 32,233,058 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl632,227,629 - 32,231,409 (-)Ensemblpanpan1.1panPan2
LY6G5C
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1121,159,598 - 1,163,526 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl121,159,598 - 1,163,526 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha121,296,174 - 1,300,102 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0121,304,967 - 1,309,728 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl121,304,969 - 1,308,899 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1121,164,273 - 1,168,198 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0121,231,445 - 1,235,371 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0121,298,663 - 1,302,592 (-)NCBIUU_Cfam_GSD_1.0
LY6G5C
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl723,791,198 - 23,795,734 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1723,791,160 - 23,795,967 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2727,451,630 - 27,460,718 (+)NCBISscrofa10.2Sscrofa10.2susScr3
LY6G5C
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11740,342,875 - 40,348,537 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1740,344,510 - 40,348,254 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604431,587,130 - 31,592,410 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Ly6g5c
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462475424,526,003 - 24,528,280 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression


Sequence

Nucleotide Sequences
RefSeq Transcripts XM_005338996 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide JAESOR010000005 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSSTOT00000013013   ⟹   ENSSTOP00000011661
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
SpeTri2.0 EnsemblNW_0049367271,848,505 - 1,852,398 (+)Ensembl
RefSeq Acc Id: XM_005338996   ⟹   XP_005339053
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440494635,708,691 - 35,714,120 (-)NCBI
SpeTri2.0NW_0049367271,848,502 - 1,852,659 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_005339053 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSSTOP00000011661.3
GenBank Protein KAG3289099 (Get FASTA)   NCBI Sequence Viewer  
Reference Protein Sequences
RefSeq Acc Id: XP_005339053   ⟸   XM_005338996
- Sequence:
RefSeq Acc Id: ENSSTOP00000011661   ⟸   ENSSTOT00000013013


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSTOG00000013012 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSSTOT00000013013.3 UniProtKB/TrEMBL
InterPro LY6G5C UniProtKB/TrEMBL
NCBI Gene Ly6g5c ENTREZGENE
PANTHER LYMPHOCYTE ANTIGEN 6 COMPLEX LOCUS PROTEIN G5C UniProtKB/TrEMBL
  PTHR14909 UniProtKB/TrEMBL
UniProt I3MK73_ICTTR UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2017-02-01 Ly6g5c  lymphocyte antigen 6 family member G5C    lymphocyte antigen 6 complex, locus G5C  Symbol and/or name change 5135510 APPROVED