C1D (C1D nuclear receptor corepressor) - Rat Genome Database

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Gene: C1D (C1D nuclear receptor corepressor) Canis lupus familiaris
Analyze
Symbol: C1D (Ensembl: WDR92)
Name: C1D nuclear receptor corepressor
RGD ID: 12360789
Description: ENCODES a protein that exhibits DNA binding (inferred); nuclear receptor binding (inferred); RNA binding (inferred); INVOLVED IN negative regulation of DNA-templated transcription (ortholog); PARTICIPATES IN ribosome biogenesis pathway; ASSOCIATED WITH genetic disease (ortholog); FOUND IN cytoplasm (inferred); exosome (RNase complex) (inferred); nucleolus (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: nuclear nucleic acid-binding protein C1D
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: CanFam3.1 - Dog CanFam3.1 Assembly
Position:
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11067,160,168 - 67,165,737 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1067,161,469 - 67,165,741 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1067,051,418 - 67,070,335 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01068,179,369 - 68,198,391 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1068,177,992 - 68,198,852 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11067,863,984 - 67,882,959 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01068,161,261 - 68,180,266 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01068,457,170 - 68,476,182 (-)NCBIUU_Cfam_GSD_1.0
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

Biological Process

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References
Additional References at PubMed
PMID:30032202  


Genomics

Comparative Map Data
C1D
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11067,160,168 - 67,165,737 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1067,161,469 - 67,165,741 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1067,051,418 - 67,070,335 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01068,179,369 - 68,198,391 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1068,177,992 - 68,198,852 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11067,863,984 - 67,882,959 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01068,161,261 - 68,180,266 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01068,457,170 - 68,476,182 (-)NCBIUU_Cfam_GSD_1.0
C1D
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38268,041,130 - 68,063,004 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl268,041,130 - 68,110,948 (-)EnsemblGRCh38hg38GRCh38
GRCh37268,268,262 - 68,290,136 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36268,122,840 - 68,143,634 (-)NCBINCBI36Build 36hg18NCBI36
Celera268,118,951 - 68,139,778 (-)NCBICelera
Cytogenetic Map2p14NCBI
HuRef268,006,516 - 68,027,346 (-)NCBIHuRef
CHM1_1268,200,196 - 68,221,015 (-)NCBICHM1_1
T2T-CHM13v2.0268,051,683 - 68,073,563 (-)NCBIT2T-CHM13v2.0
C1d
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391117,207,547 - 17,219,176 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1117,207,579 - 17,219,176 (+)EnsemblGRCm39 Ensembl
GRCm381117,257,547 - 17,269,176 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1117,257,579 - 17,269,176 (+)EnsemblGRCm38mm10GRCm38
MGSCv371117,157,621 - 17,169,179 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361117,157,621 - 17,169,179 (+)NCBIMGSCv36mm8
Celera1117,632,025 - 17,643,583 (+)NCBICelera
Cytogenetic Map11A2NCBI
cM Map119.89NCBI
C1d
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81495,862,550 - 95,874,796 (+)NCBIGRCr8
mRatBN7.21491,660,951 - 91,673,177 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1491,660,989 - 91,672,852 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1495,968,166 - 95,980,375 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01497,212,496 - 97,224,705 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01493,677,566 - 93,689,775 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.014100,415,645 - 100,427,878 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl14100,415,668 - 100,427,260 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.014100,111,604 - 100,124,172 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41498,153,633 - 98,166,585 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1490,706,936 - 90,719,163 (+)NCBICelera
Cytogenetic Map14q22NCBI
C1d
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542416,786,397 - 16,802,872 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495542416,787,094 - 16,801,600 (+)NCBIChiLan1.0ChiLan1.0
C1D
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21258,341,552 - 58,362,425 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12A58,345,500 - 58,367,398 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02A68,094,315 - 68,115,176 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12A69,218,972 - 69,239,781 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2A69,218,972 - 69,240,261 (-)Ensemblpanpan1.1panPan2
C1d
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440629216,037,206 - 16,053,613 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493649112,515,854 - 12,534,091 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493649112,517,679 - 12,534,052 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
C1D
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl374,136,624 - 74,153,747 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1374,133,665 - 74,153,756 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2377,665,599 - 77,685,688 (+)NCBISscrofa10.2Sscrofa10.2susScr3
C1D
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11439,019,972 - 39,043,109 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1439,019,588 - 39,044,032 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604572,896,821 - 72,917,353 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
C1d
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247625,242,843 - 5,256,130 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in C1D
45 total Variants

Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system reproductive system respiratory system adipose tissue
High
Medium 5 5 17 1 6 1 6 4 12 10 6
Low 5 5 5 2 8
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSCAFT00000044225   ⟹   ENSCAFP00000036187
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl1067,161,469 - 67,165,741 (-)Ensembl
RefSeq Acc Id: ENSCAFT00845040185   ⟹   ENSCAFP00845031474
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl1068,177,992 - 68,198,852 (-)Ensembl
RefSeq Acc Id: XM_038489482   ⟹   XP_038345410
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.11067,863,984 - 67,882,959 (-)NCBI
RefSeq Acc Id: XM_038551471   ⟹   XP_038407399
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.01068,457,170 - 68,476,182 (-)NCBI
RefSeq Acc Id: XM_038615407   ⟹   XP_038471335
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.01068,161,261 - 68,180,266 (-)NCBI
RefSeq Acc Id: XM_038650185   ⟹   XP_038506113
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
Dog10K_Boxer_Tasha1067,051,418 - 67,070,335 (-)NCBI
RefSeq Acc Id: XM_038680797   ⟹   XP_038536725
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.01068,179,369 - 68,198,391 (-)NCBI
Reference Protein Sequences
RefSeq Acc Id: ENSCAFP00000036187   ⟸   ENSCAFT00000044225
RefSeq Acc Id: XP_038345410   ⟸   XM_038489482
RefSeq Acc Id: XP_038471335   ⟸   XM_038615407
RefSeq Acc Id: XP_038536725   ⟸   XM_038680797
- UniProtKB: A0A8C0R8T3 (UniProtKB/TrEMBL),   A0A8C0RYV5 (UniProtKB/TrEMBL),   A0A8I3PJR3 (UniProtKB/TrEMBL),   A0A8C0QF80 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038506113   ⟸   XM_038650185
- UniProtKB: A0A8C0R8T3 (UniProtKB/TrEMBL),   A0A8C0RYV5 (UniProtKB/TrEMBL),   A0A8I3PJR3 (UniProtKB/TrEMBL),   A0A8C0QF80 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038407399   ⟸   XM_038551471
- UniProtKB: A0A8C0QF80 (UniProtKB/TrEMBL),   A0A8C0R8T3 (UniProtKB/TrEMBL),   A0A8C0RYV5 (UniProtKB/TrEMBL),   A0A8I3PJR3 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSCAFP00845031474   ⟸   ENSCAFT00845040185


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCAFG00000030099 Ensembl
  ENSCAFG00000057611 UniProtKB/TrEMBL
  ENSCAFG00030015574 UniProtKB/TrEMBL
  ENSCAFG00040006103 UniProtKB/TrEMBL
  ENSCAFG00845022766 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCAFT00000098911.1 UniProtKB/TrEMBL
  ENSCAFT00030028709.1 UniProtKB/TrEMBL
  ENSCAFT00040011368.1 UniProtKB/TrEMBL
  ENSCAFT00040011395.1 UniProtKB/TrEMBL
  ENSCAFT00040011422.1 UniProtKB/TrEMBL
  ENSCAFT00040011449.1 UniProtKB/TrEMBL
  ENSCAFT00845040185 ENTREZGENE
  ENSCAFT00845040185.1 UniProtKB/TrEMBL
Gene3D-CATH YVTN repeat-like/Quinoprotein amine dehydrogenase UniProtKB/TrEMBL
InterPro Exosome-assoc_fac/DNA_repair UniProtKB/TrEMBL
  Sas10/Utp3/C1D UniProtKB/TrEMBL
  WD40/YVTN_repeat-like_dom_sf UniProtKB/TrEMBL
  WD40_repeat_dom_sf UniProtKB/TrEMBL
  WD40_rpt UniProtKB/TrEMBL
NCBI Gene C1D ENTREZGENE
PANTHER NUCLEAR NUCLEIC ACID-BINDING PROTEIN C1D UniProtKB/TrEMBL
  PTHR15341 UniProtKB/TrEMBL
Pfam Sas10_Utp3 UniProtKB/TrEMBL
  WD40 UniProtKB/TrEMBL
PROSITE WD_REPEATS_2 UniProtKB/TrEMBL
SMART WD40 UniProtKB/TrEMBL
Superfamily-SCOP WD40 repeat-like UniProtKB/TrEMBL
UniProt A0A8C0Q7G6_CANLF UniProtKB/TrEMBL
  A0A8C0QF80 ENTREZGENE, UniProtKB/TrEMBL
  A0A8C0R8T3 ENTREZGENE
  A0A8C0RYV5 ENTREZGENE, UniProtKB/TrEMBL
  A0A8C0RZ49_CANLF UniProtKB/TrEMBL
  A0A8I3PJR3 ENTREZGENE, UniProtKB/TrEMBL
VGNC ID VGNC:38573 ENTREZGENE