RXRA (retinoid X receptor alpha) - Rat Genome Database

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Gene: RXRA (retinoid X receptor alpha) Pan paniscus
Analyze
Symbol: RXRA
Name: retinoid X receptor alpha
RGD ID: 12048888
Description: ENCODES a protein that exhibits chromatin DNA binding (ortholog); double-stranded DNA binding (ortholog); nuclear receptor activity (ortholog); INVOLVED IN axon regeneration (ortholog); camera-type eye development (ortholog); cardiac muscle cell proliferation (ortholog); PARTICIPATES IN retinoic acid signaling pathway; ASSOCIATED WITH alcoholic cardiomyopathy (ortholog); amyotrophic lateral sclerosis type 1 (ortholog); congenital heart disease (ortholog); FOUND IN axon (ortholog); RNA polymerase II transcription regulator complex (ortholog); transcription regulator complex (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: retinoic acid receptor RXR-alpha
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-v2114,937,570 - 5,052,654 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan194,939,903 - 5,054,985 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v09105,424,046 - 105,539,241 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.19134,082,865 - 134,144,704 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl9134,082,865 - 134,144,704 (+)Ensemblpanpan1.1panPan2
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
axon regeneration  (ISO)
camera-type eye development  (ISO)
cardiac muscle cell proliferation  (ISO)
cell differentiation  (IEA)
cellular response to insulin stimulus  (ISO)
embryo implantation  (ISO)
female pregnancy  (ISO)
gene expression  (ISO)
heart development  (ISO)
hormone-mediated signaling pathway  (IEA)
in utero embryonic development  (ISO)
liver development  (ISO)
maternal placenta development  (ISO)
midgut development  (ISO)
mRNA transcription by RNA polymerase II  (IEA)
negative regulation of cell population proliferation  (ISO)
negative regulation of transcription by RNA polymerase II  (IEA,ISO)
peroxisome proliferator activated receptor signaling pathway  (IEA)
placenta development  (ISO)
positive regulation of apoptotic process  (ISO)
positive regulation of DNA-templated transcription  (IEA,ISO)
positive regulation of thyroid hormone mediated signaling pathway  (IEA)
positive regulation of transcription by RNA polymerase II  (IEA,ISO)
positive regulation of translational initiation by iron  (ISO)
positive regulation of vitamin D receptor signaling pathway  (IEA)
regulation of branching involved in prostate gland morphogenesis  (ISO)
regulation of DNA-templated transcription  (IEA,ISO)
regulation of myelination  (ISO)
regulation of transcription by RNA polymerase II  (ISO)
response to ethanol  (ISO)
response to glucocorticoid  (ISO)
response to nutrient  (ISO)
response to organic cyclic compound  (ISO)
response to retinoic acid  (IEA,ISO)
response to selenium ion  (ISO)
response to vitamin A  (ISO)
response to vitamin D  (ISO)
retinoic acid receptor signaling pathway  (IEA,ISO)
secretory columnal luminar epithelial cell differentiation involved in prostate glandular acinus development  (ISO)
steroid hormone mediated signaling pathway  (IEA)
ventricular cardiac muscle cell differentiation  (ISO)
ventricular cardiac muscle tissue morphogenesis  (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
RXRA
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2114,937,570 - 5,052,654 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan194,939,903 - 5,054,985 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v09105,424,046 - 105,539,241 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.19134,082,865 - 134,144,704 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl9134,082,865 - 134,144,704 (+)Ensemblpanpan1.1panPan2
RXRA
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh389134,326,455 - 134,440,585 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl9134,317,098 - 134,440,585 (+)EnsemblGRCh38hg38GRCh38
GRCh379137,218,301 - 137,332,431 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 369136,358,231 - 136,472,252 (+)NCBINCBI36Build 36hg18NCBI36
Build 349134,519,421 - 134,558,376NCBI
Celera9107,734,128 - 107,848,213 (+)NCBICelera
Cytogenetic Map9q34.2NCBI
HuRef9106,757,493 - 106,796,351 (+)NCBIHuRef
CHM1_19137,442,044 - 137,480,968 (+)NCBICHM1_1
T2T-CHM13v2.09146,541,633 - 146,657,063 (+)NCBIT2T-CHM13v2.0
Rxra
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39227,566,457 - 27,653,331 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl227,566,452 - 27,652,969 (+)EnsemblGRCm39 Ensembl
GRCm38227,676,445 - 27,763,319 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl227,676,440 - 27,762,957 (+)EnsemblGRCm38mm10GRCm38
MGSCv37227,532,721 - 27,618,839 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36227,499,210 - 27,585,328 (+)NCBIMGSCv36mm8
Celera227,439,778 - 27,465,824 (+)NCBICelera
Cytogenetic Map2A3NCBI
cM Map219.38NCBI
Rxra
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8331,387,892 - 31,474,415 (+)NCBIGRCr8
mRatBN7.2310,989,832 - 11,076,366 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl310,989,832 - 11,073,712 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx314,057,333 - 14,141,119 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0322,642,768 - 22,726,554 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0320,896,722 - 20,980,500 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.036,272,560 - 6,295,354 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl36,211,789 - 6,295,908 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0311,631,209 - 11,653,959 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.436,605,782 - 6,689,224 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.136,606,054 - 6,690,078 (+)NCBI
Celera35,843,675 - 5,866,536 (+)NCBICelera
Cytogenetic Map3p12NCBI
Rxra
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555133,335,897 - 3,386,994 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049555133,313,544 - 3,386,544 (+)NCBIChiLan1.0ChiLan1.0
RXRA
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1950,525,195 - 50,575,720 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl950,484,567 - 50,573,119 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha949,766,609 - 49,860,130 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0951,360,100 - 51,453,773 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl951,359,634 - 51,453,363 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1950,120,766 - 50,214,385 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0950,464,001 - 50,557,538 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0950,541,613 - 50,635,257 (+)NCBIUU_Cfam_GSD_1.0
Rxra
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404947200,612,017 - 200,639,947 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366692,738,448 - 2,763,070 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049366692,735,111 - 2,763,060 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
RXRA
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1273,705,505 - 273,797,620 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11273,698,842 - 273,797,622 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
RXRA
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1123,704,129 - 3,814,707 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl123,699,923 - 3,814,678 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660581,284,770 - 1,401,711 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Rxra
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247602,380,708 - 2,456,928 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247602,379,809 - 2,455,749 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression


Sequence


RefSeq Acc Id: ENSPPAT00000061781   ⟹   ENSPPAP00000038872
Type: CODING
Position:
Bonobo AssemblyChrPosition (strand)Source
PanPan1.1 Ensembl9134,082,865 - 134,144,704 (+)Ensembl
RefSeq Acc Id: ENSPPAT00000061801   ⟹   ENSPPAP00000038892
Type: CODING
Position:
Bonobo AssemblyChrPosition (strand)Source
PanPan1.1 Ensembl9134,103,197 - 134,140,766 (+)Ensembl
RefSeq Acc Id: XM_003822450   ⟹   XP_003822498
Type: CODING
Position:
Bonobo AssemblyChrPosition (strand)Source
NHGRI_mPanPan1-v2114,937,570 - 4,976,080 (-)NCBI
NHGRI_mPanPan194,939,903 - 4,977,057 (-)NCBI
Mhudiblu_PPA_v09105,504,969 - 105,539,241 (+)NCBI
PanPan1.19134,111,252 - 134,144,704 (+)NCBI
Sequence:
RefSeq Acc Id: XM_034929439   ⟹   XP_034785330
Type: CODING
Position:
Bonobo AssemblyChrPosition (strand)Source
NHGRI_mPanPan1-v2114,937,570 - 4,970,624 (-)NCBI
NHGRI_mPanPan194,939,903 - 4,972,962 (-)NCBI
Mhudiblu_PPA_v09105,506,196 - 105,535,439 (+)NCBI
RefSeq Acc Id: XM_034929440   ⟹   XP_034785331
Type: CODING
Position:
Bonobo AssemblyChrPosition (strand)Source
NHGRI_mPanPan1-v2114,937,570 - 5,052,654 (-)NCBI
NHGRI_mPanPan194,939,903 - 5,054,985 (-)NCBI
Mhudiblu_PPA_v09105,424,046 - 105,539,241 (+)NCBI
Protein Sequences
Protein RefSeqs XP_003822498 (Get FASTA)   NCBI Sequence Viewer  
  XP_034785330 (Get FASTA)   NCBI Sequence Viewer  
  XP_034785331 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSPPAP00000038872.1
  ENSPPAP00000038892.1
RefSeq Acc Id: XP_003822498   ⟸   XM_003822450
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_034785331   ⟸   XM_034929440
- Peptide Label: isoform X3
- UniProtKB: A0A2R9CL33 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_034785330   ⟸   XM_034929439
- Peptide Label: isoform X1
- UniProtKB: A0A2R9CL33 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSPPAP00000038872   ⟸   ENSPPAT00000061781
RefSeq Acc Id: ENSPPAP00000038892   ⟸   ENSPPAT00000061801
Protein Domains
NR LBD   Nuclear receptor


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSPPAG00000042125 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSPPAT00000061781.1 UniProtKB/TrEMBL
  ENSPPAT00000061801.1 UniProtKB/TrEMBL
Gene3D-CATH 1.10.565.10 UniProtKB/TrEMBL
  3.30.50.10 UniProtKB/TrEMBL
InterPro NHR-like_dom_sf UniProtKB/TrEMBL
  Nuc_recep-AF1 UniProtKB/TrEMBL
  Nucl_hrmn_rcpt_lig-bd UniProtKB/TrEMBL
  Nuclear_hrmn_rcpt UniProtKB/TrEMBL
  Retinoid-X_rcpt/HNF4 UniProtKB/TrEMBL
  Znf_hrmn_rcpt UniProtKB/TrEMBL
  Znf_NHR/GATA UniProtKB/TrEMBL
NCBI Gene RXRA ENTREZGENE
PANTHER NUCLEAR HORMONE RECEPTOR UniProtKB/TrEMBL
  RETINOIC ACID RECEPTOR RXR-ALPHA UniProtKB/TrEMBL
Pfam Hormone_recep UniProtKB/TrEMBL
  Nuc_recep-AF1 UniProtKB/TrEMBL
  zf-C4 UniProtKB/TrEMBL
PRINTS RETINOIDXR 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 A0A2R9CL33 ENTREZGENE, UniProtKB/TrEMBL
  A0A2R9CL53_PANPA UniProtKB/TrEMBL