RARA (retinoic acid receptor alpha) - Rat Genome Database

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Gene: RARA (retinoic acid receptor alpha) Pan paniscus
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Symbol: RARA
Name: retinoic acid receptor alpha
RGD ID: 11944369
Description: ENCODES a protein that exhibits alpha-actinin binding (ortholog); chromatin binding (ortholog); chromatin DNA binding (ortholog); INVOLVED IN apoptotic cell clearance (ortholog); bone development (ortholog); cellular response to estrogen stimulus (ortholog); PARTICIPATES IN retinoic acid signaling pathway; ASSOCIATED WITH acute promyelocytic leukemia (ortholog); amyotrophic lateral sclerosis (ortholog); Breast Neoplasms (ortholog); FOUND IN actin cytoskeleton (ortholog); chromatin (ortholog); cytosol (ortholog)
Type: protein-coding
RefSeq Status: MODEL
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Mhudiblu_PPA_v0 - Bonobo Mhudiblu_PPA_v0 Assembly
Position:
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21924,598,318 - 24,646,791 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11726,493,204 - 26,541,701 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01716,932,485 - 16,980,958 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11717,156,923 - 17,205,451 (-)NCBIpanpan1.1PanPan1.1panPan2
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
apoptotic cell clearance  (ISO)
bone development  (IEA,ISO)
cellular response to corticotropin-releasing hormone stimulus  (IEA)
cellular response to estrogen stimulus  (ISO)
cellular response to lipopolysaccharide  (IEA)
cellular response to retinoic acid  (ISO)
chondroblast differentiation  (IEA,ISO)
embryonic camera-type eye development  (IEA,ISO)
face development  (IEA,ISO)
female pregnancy  (ISO)
germ cell development  (IEA)
glandular epithelial cell development  (IEA,ISO)
growth plate cartilage development  (IEA,ISO)
hippocampus development  (ISO)
intracellular receptor signaling pathway  (ISO)
limb development  (IEA,ISO)
liver development  (ISO)
male gonad development  (ISO)
mRNA transcription by RNA polymerase II  (ISO)
multicellular organism growth  (IEA,ISO)
negative regulation of cartilage development  (IEA,ISO)
negative regulation of cell differentiation  (IEA,ISO)
negative regulation of cell population proliferation  (ISO)
negative regulation of DNA-templated transcription  (IEA,ISO)
negative regulation of gene expression  (IEA,ISO)
negative regulation of granulocyte differentiation  (ISO)
negative regulation of miRNA transcription  (ISO)
negative regulation of transcription by RNA polymerase II  (IEA,ISO)
negative regulation of translation  (ISO)
negative regulation of tumor necrosis factor production  (ISO)
negative regulation of type II interferon production  (ISO)
neural tube closure  (IEA,ISO)
positive regulation of cell cycle  (ISO)
positive regulation of cell population proliferation  (IEA,ISO)
positive regulation of DNA-templated transcription  (ISO)
positive regulation of gene expression  (IEA)
positive regulation of interleukin-13 production  (ISO)
positive regulation of interleukin-4 production  (ISO)
positive regulation of interleukin-5 production  (ISO)
positive regulation of neuron differentiation  (ISO)
positive regulation of T-helper 2 cell differentiation  (ISO)
positive regulation of transcription by RNA polymerase II  (IEA,ISO)
prostate gland development  (ISO)
regulation of apoptotic process  (ISO)
regulation of DNA-templated transcription  (IEA,ISO)
regulation of granulocyte differentiation  (IEA,ISO)
regulation of hematopoietic progenitor cell differentiation  (IEA,ISO)
regulation of myelination  (ISO)
regulation of synaptic plasticity  (ISO)
regulation of transcription by RNA polymerase II  (IEA,ISO)
response to cytokine  (ISO)
response to estradiol  (ISO)
response to ethanol  (ISO)
response to retinoic acid  (IEA,ISO)
response to vitamin A  (ISO)
retinoic acid receptor signaling pathway  (IEA)
Sertoli cell fate commitment  (IEA)
trachea cartilage development  (IEA,ISO)
ureteric bud development  (IEA,ISO)
ventricular cardiac muscle cell differentiation  (IEA,ISO)

Cellular Component

Molecular Pathway Annotations     Click to see Annotation Detail View
References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
RARA
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21924,598,318 - 24,646,791 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11726,493,204 - 26,541,701 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01716,932,485 - 16,980,958 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11717,156,923 - 17,205,451 (-)NCBIpanpan1.1PanPan1.1panPan2
RARA
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381740,309,180 - 40,357,643 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1740,309,180 - 40,357,643 (+)EnsemblGRCh38hg38GRCh38
GRCh371738,465,432 - 38,513,895 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361735,718,972 - 35,767,420 (+)NCBINCBI36Build 36hg18NCBI36
Build 341735,740,895 - 35,767,420NCBI
Celera1735,125,565 - 35,174,038 (+)NCBICelera
Cytogenetic Map17q21.2NCBI
HuRef1734,258,584 - 34,307,018 (+)NCBIHuRef
CHM1_11738,700,731 - 38,749,203 (+)NCBICHM1_1
T2T-CHM13v2.01741,172,682 - 41,221,155 (+)NCBIT2T-CHM13v2.0
Rara
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391198,818,626 - 98,865,768 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1198,818,644 - 98,865,768 (+)EnsemblGRCm39 Ensembl
GRCm381198,927,800 - 98,974,942 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1198,927,818 - 98,974,942 (+)EnsemblGRCm38mm10GRCm38
MGSCv371198,799,010 - 98,836,256 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361198,753,943 - 98,788,760 (+)NCBIMGSCv36mm8
Celera11108,602,792 - 108,640,796 (+)NCBICelera
Cytogenetic Map11DNCBI
cM Map1162.76NCBI
Rara
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81084,379,780 - 84,424,371 (+)NCBIGRCr8
mRatBN7.21083,883,490 - 83,928,932 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1083,893,384 - 83,928,142 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1088,859,187 - 88,872,075 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01088,357,291 - 88,370,179 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01083,749,813 - 83,762,723 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01086,838,819 - 86,884,224 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1086,860,685 - 86,884,210 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01086,663,856 - 86,681,847 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41087,740,479 - 87,753,265 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11087,754,841 - 87,767,635 (+)NCBI
Celera1082,656,708 - 82,669,574 (+)NCBICelera
Cytogenetic Map10q31NCBI
Rara
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495545114,897,726 - 14,917,134 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495545114,876,663 - 14,917,134 (+)NCBIChiLan1.0ChiLan1.0
RARA
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1922,254,803 - 22,298,614 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl922,254,806 - 22,289,459 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha921,727,250 - 21,761,701 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0923,046,731 - 23,091,126 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl923,046,740 - 23,081,981 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1921,821,642 - 21,856,078 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0922,080,340 - 22,114,785 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0922,205,221 - 22,239,665 (-)NCBIUU_Cfam_GSD_1.0
Rara
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440560221,654,499 - 21,698,923 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493649015,376,205 - 15,421,611 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493649015,376,217 - 15,420,638 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
RARA
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1222,047,443 - 22,085,673 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11222,047,449 - 22,085,759 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21222,356,038 - 22,403,796 (-)NCBISscrofa10.2Sscrofa10.2susScr3
RARA
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11665,817,849 - 65,866,862 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1665,817,757 - 65,866,878 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366607736,718,924 - 36,759,030 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Rara
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247952,934,731 - 2,967,232 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247952,935,432 - 2,975,226 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression


Sequence


RefSeq Acc Id: XM_003831421   ⟹   XP_003831469
Type: CODING
Position:
Bonobo AssemblyChrPosition (strand)Source
NHGRI_mPanPan1-v21924,598,318 - 24,613,893 (-)NCBI
NHGRI_mPanPan11726,493,204 - 26,508,778 (-)NCBI
Mhudiblu_PPA_v01716,932,485 - 16,948,017 (-)NCBI
PanPan1.11717,156,923 - 17,172,598 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008956764   ⟹   XP_008955012
Type: CODING
Position:
Bonobo AssemblyChrPosition (strand)Source
NHGRI_mPanPan1-v21924,598,318 - 24,637,853 (-)NCBI
NHGRI_mPanPan11726,493,204 - 26,532,768 (-)NCBI
Mhudiblu_PPA_v01716,932,485 - 16,972,798 (-)NCBI
PanPan1.11717,156,923 - 17,196,414 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008956765   ⟹   XP_008955013
Type: CODING
Position:
Bonobo AssemblyChrPosition (strand)Source
NHGRI_mPanPan1-v21924,598,318 - 24,646,791 (-)NCBI
NHGRI_mPanPan11726,493,204 - 26,541,701 (-)NCBI
Mhudiblu_PPA_v01716,932,485 - 16,980,958 (-)NCBI
PanPan1.11717,156,923 - 17,205,451 (-)NCBI
Sequence:
RefSeq Acc Id: XM_063598663   ⟹   XP_063454733
Type: CODING
Position:
Bonobo AssemblyChrPosition (strand)Source
NHGRI_mPanPan1-v21924,598,318 - 24,637,853 (-)NCBI
RefSeq Acc Id: XM_063598664   ⟹   XP_063454734
Type: CODING
Position:
Bonobo AssemblyChrPosition (strand)Source
NHGRI_mPanPan1-v21924,598,318 - 24,614,610 (-)NCBI
RefSeq Acc Id: XP_008955013   ⟸   XM_008956765
- Peptide Label: isoform X1
- UniProtKB: A0A2R9CL03 (UniProtKB/TrEMBL),   A0A2R9CL17 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008955012   ⟸   XM_008956764
- Peptide Label: isoform X1
- UniProtKB: A0A2R9CL03 (UniProtKB/TrEMBL),   A0A2R9CL17 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_003831469   ⟸   XM_003831421
- Peptide Label: isoform X2
- UniProtKB: A0A2R9CKZ4 (UniProtKB/TrEMBL),   A0A2R9CL17 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_063454733   ⟸   XM_063598663
- Peptide Label: isoform X1
- UniProtKB: A0A2R9CL03 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063454734   ⟸   XM_063598664
- Peptide Label: isoform X3
Protein Domains
NR LBD   Nuclear receptor


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSPPAG00000043874 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSPPAT00000065561.1 UniProtKB/TrEMBL
  ENSPPAT00000065569.1 UniProtKB/TrEMBL
  ENSPPAT00000065570.1 UniProtKB/TrEMBL
  ENSPPAT00000065572.1 UniProtKB/TrEMBL
  ENSPPAT00000065575.1 UniProtKB/TrEMBL
  ENSPPAT00000065576.1 UniProtKB/TrEMBL
  ENSPPAT00000065577.1 UniProtKB/TrEMBL
Gene3D-CATH 1.10.565.10 UniProtKB/TrEMBL
  3.30.50.10 UniProtKB/TrEMBL
InterPro NHR-like_dom_sf UniProtKB/TrEMBL
  NR_DBD_RAR UniProtKB/TrEMBL
  NR_LBD_RAR UniProtKB/TrEMBL
  Nucl_hrmn_rcpt_lig-bd UniProtKB/TrEMBL
  Nuclear_hrmn_rcpt UniProtKB/TrEMBL
  Retinoic_acid_rcpt UniProtKB/TrEMBL
  Znf_hrmn_rcpt UniProtKB/TrEMBL
  Znf_NHR/GATA UniProtKB/TrEMBL
KEGG Report pps:100967548 UniProtKB/TrEMBL
NCBI Gene RARA ENTREZGENE
PANTHER NUCLEAR HORMONE RECEPTOR UniProtKB/TrEMBL
  RETINOIC ACID RECEPTOR ALPHA UniProtKB/TrEMBL
Pfam Hormone_recep UniProtKB/TrEMBL
  zf-C4 UniProtKB/TrEMBL
PRINTS RETNOICACIDR UniProtKB/TrEMBL
  STRDHORMONER UniProtKB/TrEMBL
  STROIDFINGER UniProtKB/TrEMBL
PROSITE NR_LBD UniProtKB/TrEMBL
  NUCLEAR_REC_DBD_1 UniProtKB/TrEMBL
  NUCLEAR_REC_DBD_2 UniProtKB/TrEMBL
SMART HOLI UniProtKB/TrEMBL
  ZnF_C4 UniProtKB/TrEMBL
Superfamily-SCOP Glucocorticoid receptor-like (DNA-binding domain) UniProtKB/TrEMBL
  SSF48508 UniProtKB/TrEMBL
UniProt A0A2R9CKX4_PANPA UniProtKB/TrEMBL
  A0A2R9CKX9_PANPA UniProtKB/TrEMBL
  A0A2R9CKZ4 ENTREZGENE, UniProtKB/TrEMBL
  A0A2R9CL03 ENTREZGENE, UniProtKB/TrEMBL
  A0A2R9CL17 ENTREZGENE, UniProtKB/TrEMBL
  A0A2R9CSW7_PANPA UniProtKB/TrEMBL
  A0A2R9CSW9_PANPA UniProtKB/TrEMBL