| Tag | Content |
|---|---|
| Uniprot ID | P11416; P22603; |
| Entrez ID | 19401 |
| Genbank protein ID | AAA40031.1; CAA39917.1; AAB25783.1; CAA40749.1; AAH10216.1; CAA39919.1; |
| Genbank nucleotide ID | NM_001177303.1; NM_009024.2; XM_006532593.2; XM_006532592.3; NM_001177302.1; NM_001176528.1; XM_017314353.1; |
| Ensembl protein ID | ENSMUSP00000103097; ENSMUSP00000069744; ENSMUSP00000129791; ENSMUSP00000103098; ENSMUSP00000103099; |
| Ensembl nucleotide ID | ENSMUSG00000037992 |
| Gene name | Retinoic acid receptor alpha |
| Gene symbol | Rara |
| Organism | Mus musculus |
| NCBI taxa ID | 10090 |
| Cleft type | CPO |
| Developmental stage | E14.5 |
| Data sources | Manually collected |
| Reference | 8096643; 7607067; 7626396; |
| Functional description | Receptor for retinoic acid (PubMed:17205979). Retinoic acid receptors bind as heterodimers to their target response elements in response to their ligands, all-trans or 9-cis retinoic acid, and regulate gene expression in various biological processes (PubMed:17205979). The RXR/RAR heterodimers bind to the retinoic acid response elements (RARE) composed of tandem 5'-AGGTCA-3' sites known as DR1-DR5 (PubMed:17205979). In the absence of ligand, the RXR-RAR heterodimers associate with a multiprotein complex containing transcription corepressors that induce histone deacetylation, chromatin condensation and transcriptional suppression (By similarity). On ligand binding, the corepressors dissociate from the receptors and associate with the coactivators leading to transcriptional activation (PubMed:17205979, PubMed:9230306, PubMed:19078967). Formation of heterocomplex with histone deacetylases might lead to inhibition of RARE DNA element binding and to transcriptional repression (By similarity). Transcriptional activation and RARE DNA element binding might be supported by the transcription factor KLF2 (By similarity). RARA plays an essential role in the regulation of retinoic acid-induced germ cell development during spermatogenesis (PubMed:15901285). Has a role in the survival of early spermatocytes at the beginning prophase of meiosis (PubMed:15901285, PubMed:17905941). In Sertoli cells, may promote the survival and development of early meiotic prophase spermatocytes (PubMed:10660575, PubMed:17905941). In concert with RARG, required for skeletal growth, matrix homeostasis and growth plate function (PubMed:19389355). Together with RXRA, positively regulates microRNA-10a expression, thereby inhibiting the GATA6/VCAM1 signaling response to pulsatile shear stress in vascular endothelial cells (By similarity). In association with HDAC3, HDAC5 and HDAC7 corepressors, plays a role in the repression of microRNA-10a and thereby promotes the inflammatory response (By similarity). |
| Sequence | MASNSSSCPT PGGGHLNGYP VPPYAFFFPP MLGGLSPPGA LTSLQHQLPV SGYSTPSPAT 60 IETQSSSSEE IVPSPPSPPP LPRIYKPCFV CQDKSSGYHY GVSACEGCKG FFRRSIQKNM 120 VYTCHRDKNC IINKVTRNRC QYCRLQKCFD VGMSKESVRN DRNKKKKEAP KPECSESYTL 180 TPEVGELIEK VRKAHQETFP ALCQLGKYTT NNSSEQRVSL DIDLWDKFSE LSTKCIIKTV 240 EFAKQLPGFT TLTIADQITL LKAACLDILI LRICTRYTPE QDTMTFSDGL TLNRTQMHNA 300 GFGPLTDLVF AFANQLLPLE MDDAETGLLS AICLICGDRQ DLEQPDKVDM LQEPLLEALK 360 VYVRKRRPSR PHMFPKMLMK ITDLRSISAK GAERVITLKM EIPGSMPPLI QEMLENSEGL 420 DTLSGQSGGG TRDGGGLAPP PGSCSPSLSP SSHRSSPATQ SP 462 |
Abbreviation :
CLO : cleft lip only. CPO : cleft palate only.
CLP : cleft lip and palate. CL/P : cleft lip with/without cleft palate.
For humans: CL/P, CLO, CPO, and CLP. For mice: CLO, CLP, and CPO.
| Relation | Gene symbol | Entrez ID | UniProt ID | Cleft type | Developmental stage | Species | Evidence | Details |
|---|---|---|---|---|---|---|---|---|
| 1:1 ortholog | RARA | 534280 | F1MWQ3 | Bos taurus | Prediction | More>> | ||
| 1:1 ortholog | RARA | 102188350 | A0A452EMU9 | Capra hircus | Prediction | More>> | ||
| 1:1 ortholog | RARA | 5914 | P10276 | CPO,CL/P | Homo sapiens | Publication | More>> | |
| 1:1 ortholog | Rara | 19401 | P11416 | CPO | E14.5 | Mus musculus | Publication | More>> |
| 1:1 ortholog | RARA | 454647 | A0A2J8KGL7 | Pan troglodytes | Prediction | More>> | ||
| 1:1 ortholog | RARA | 396709 | A0A480PNE7 | Sus scrofa | Prediction | More>> | ||
| 1:1 ortholog | RARA | G1TI43 | Oryctolagus cuniculus | Prediction | More>> | |||
| 1:1 ortholog | Rara | 24705 | A0A0G2JW78 | Rattus norvegicus | Prediction | More>> | ||
| 1:1 ortholog | raraa | 30680 | T2DKU4 | Danio rerio | Prediction | More>> |
| GO ID | GO Term | Evidence |
|---|---|---|
| GO:0000900 | translation repressor activity, mRNA regulatory element binding | ISO |
| GO:0000976 | transcription regulatory region sequence-specific DNA binding | IBA |
| GO:0000977 | RNA polymerase II regulatory region sequence-specific DNA binding | ISO |
| GO:0000977 | RNA polymerase II regulatory region sequence-specific DNA binding | IBA |
| GO:0000981 | DNA-binding transcription factor activity, RNA polymerase II-specific | IBA |
| GO:0001012 | RNA polymerase II regulatory region DNA binding | IDA |
| GO:0001972 | retinoic acid binding | ISO |
| GO:0003677 | DNA binding | IDA |
| GO:0003700 | DNA-binding transcription factor activity | ISO |
| GO:0003700 | DNA-binding transcription factor activity | IDA |
| GO:0003707 | steroid hormone receptor activity | IEA |
| GO:0003713 | transcription coactivator activity | ISO |
| GO:0003714 | transcription corepressor activity | ISO |
| GO:0004879 | nuclear receptor activity | ISO |
| GO:0004879 | nuclear receptor activity | IDA |
| GO:0005102 | signaling receptor binding | ISO |
| GO:0005515 | protein binding | IPI |
| GO:0008134 | transcription factor binding | ISO |
| GO:0008134 | transcription factor binding | IPI |
| GO:0008134 | transcription factor binding | IBA |
| GO:0008144 | drug binding | ISO |
| GO:0008270 | zinc ion binding | IEA |
| GO:0019899 | enzyme binding | ISO |
| GO:0019904 | protein domain specific binding | ISO |
| GO:0030374 | nuclear receptor transcription coactivator activity | IBA |
| GO:0031490 | chromatin DNA binding | ISO |
| GO:0035014 | phosphatidylinositol 3-kinase regulator activity | ISO |
| GO:0038023 | signaling receptor activity | ISO |
| GO:0038023 | signaling receptor activity | IBA |
| GO:0042826 | histone deacetylase binding | ISO |
| GO:0043422 | protein kinase B binding | ISO |
| GO:0043565 | sequence-specific DNA binding | IDA |
| GO:0043565 | sequence-specific DNA binding | IGI |
| GO:0044212 | transcription regulatory region DNA binding | IMP |
| GO:0044212 | transcription regulatory region DNA binding | IDA |
| GO:0044323 | retinoic acid-responsive element binding | ISO |
| GO:0048027 | mRNA 5'-UTR binding | ISO |
| GO:0051018 | protein kinase A binding | ISO |
| GO:0051393 | alpha-actinin binding | ISO |
| GO:0098531 | ligand-activated transcription factor activity | IBA |
| GO ID | GO Term | Evidence |
|---|---|---|
| GO:0000122 | negative regulation of transcription by RNA polymerase II | IBA |
| GO:0000122 | negative regulation of transcription by RNA polymerase II | IGI |
| GO:0000122 | negative regulation of transcription by RNA polymerase II | IDA |
| GO:0001657 | ureteric bud development | IMP |
| GO:0001843 | neural tube closure | IGI |
| GO:0001889 | liver development | IBA |
| GO:0002068 | glandular epithelial cell development | IGI |
| GO:0003148 | outflow tract septum morphogenesis | IGI |
| GO:0003417 | growth plate cartilage development | IGI |
| GO:0006355 | regulation of transcription, DNA-templated | IDA |
| GO:0006468 | protein phosphorylation | ISO |
| GO:0007165 | signal transduction | ISO |
| GO:0007275 | multicellular organism development | IBA |
| GO:0007281 | germ cell development | IMP |
| GO:0007283 | spermatogenesis | IMP |
| GO:0007565 | female pregnancy | IEA |
| GO:0008284 | positive regulation of cell population proliferation | ISO |
| GO:0008284 | positive regulation of cell population proliferation | IGI |
| GO:0008285 | negative regulation of cell population proliferation | ISO |
| GO:0008584 | male gonad development | ISO |
| GO:0009755 | hormone-mediated signaling pathway | IBA |
| GO:0010628 | positive regulation of gene expression | IMP |
| GO:0010629 | negative regulation of gene expression | IGI |
| GO:0014068 | positive regulation of phosphatidylinositol 3-kinase signaling | ISO |
| GO:0017148 | negative regulation of translation | ISO |
| GO:0021766 | hippocampus development | IEA |
| GO:0030154 | cell differentiation | IBA |
| GO:0030850 | prostate gland development | IEA |
| GO:0030852 | regulation of granulocyte differentiation | IMP |
| GO:0030853 | negative regulation of granulocyte differentiation | ISO |
| GO:0031076 | embryonic camera-type eye development | IGI |
| GO:0031641 | regulation of myelination | ISO |
| GO:0032355 | response to estradiol | IEA |
| GO:0032526 | response to retinoic acid | ISO |
| GO:0032526 | response to retinoic acid | IMP |
| GO:0032526 | response to retinoic acid | IBA |
| GO:0032689 | negative regulation of interferon-gamma production | ISO |
| GO:0032720 | negative regulation of tumor necrosis factor production | ISO |
| GO:0032736 | positive regulation of interleukin-13 production | ISO |
| GO:0032753 | positive regulation of interleukin-4 production | ISO |
| GO:0032754 | positive regulation of interleukin-5 production | ISO |
| GO:0033189 | response to vitamin A | IEA |
| GO:0033993 | response to lipid | IBA |
| GO:0034097 | response to cytokine | IEA |
| GO:0035264 | multicellular organism growth | IGI |
| GO:0042981 | regulation of apoptotic process | ISO |
| GO:0043066 | negative regulation of apoptotic process | IGI |
| GO:0043277 | apoptotic cell clearance | ISO |
| GO:0043401 | steroid hormone mediated signaling pathway | IEA |
| GO:0043551 | regulation of phosphatidylinositol 3-kinase activity | IEA |
| GO:0045471 | response to ethanol | ISO |
| GO:0045596 | negative regulation of cell differentiation | IMP |
| GO:0045630 | positive regulation of T-helper 2 cell differentiation | ISO |
| GO:0045666 | positive regulation of neuron differentiation | ISO |
| GO:0045787 | positive regulation of cell cycle | ISO |
| GO:0045892 | negative regulation of transcription, DNA-templated | ISO |
| GO:0045892 | negative regulation of transcription, DNA-templated | IDA |
| GO:0045893 | positive regulation of transcription, DNA-templated | ISO |
| GO:0045944 | positive regulation of transcription by RNA polymerase II | ISO |
| GO:0045944 | positive regulation of transcription by RNA polymerase II | IGI |
| GO:0045944 | positive regulation of transcription by RNA polymerase II | IBA |
| GO:0045944 | positive regulation of transcription by RNA polymerase II | IDA |
| GO:0048167 | regulation of synaptic plasticity | ISO |
| GO:0048384 | retinoic acid receptor signaling pathway | ISO |
| GO:0048384 | retinoic acid receptor signaling pathway | IBA |
| GO:0048568 | embryonic organ development | IBA |
| GO:0048732 | gland development | IBA |
| GO:0051099 | positive regulation of binding | ISO |
| GO:0051897 | positive regulation of protein kinase B signaling | ISO |
| GO:0055012 | ventricular cardiac muscle cell differentiation | IMP |
| GO:0060010 | Sertoli cell fate commitment | IMP |
| GO:0060173 | limb development | IGI |
| GO:0060324 | face development | IGI |
| GO:0060348 | bone development | IGI |
| GO:0060349 | bone morphogenesis | IBA |
| GO:0060429 | epithelium development | IBA |
| GO:0060534 | trachea cartilage development | IMP |
| GO:0060591 | chondroblast differentiation | IMP |
| GO:0061037 | negative regulation of cartilage development | IMP |
| GO:0070374 | positive regulation of ERK1 and ERK2 cascade | ISO |
| GO:0071222 | cellular response to lipopolysaccharide | IDA |
| GO:0071300 | cellular response to retinoic acid | ISO |
| GO:0071300 | cellular response to retinoic acid | IBA |
| GO:0071391 | cellular response to estrogen stimulus | ISO |
| GO ID | GO Term | Evidence |
|---|---|---|
| GO:0000790 | nuclear chromatin | ISO |
| GO:0005634 | nucleus | ISO |
| GO:0005634 | nucleus | IDA |
| GO:0005634 | nucleus | IBA |
| GO:0005654 | nucleoplasm | ISO |
| GO:0005654 | nucleoplasm | TAS |
| GO:0005737 | cytoplasm | ISO |
| GO:0005737 | cytoplasm | IDA |
| GO:0005829 | cytosol | ISO |
| GO:0015629 | actin cytoskeleton | ISO |
| GO:0030425 | dendrite | ISO |
| GO:0043005 | neuron projection | ISO |
| GO:0048471 | perinuclear region of cytoplasm | ISO |
| GO:0090575 | RNA polymerase II transcription factor complex | IBA |
| Reactome ID | Reactome Term | Evidence |
|---|---|---|
| R-MMU-1266738 | Developmental Biology | IEA |
| R-MMU-162582 | Signal Transduction | IEA |
| R-MMU-212436 | Generic Transcription Pathway | IEA |
| R-MMU-2990846 | SUMOylation | IEA |
| R-MMU-3108232 | SUMO E3 ligases SUMOylate target proteins | IEA |
| R-MMU-383280 | Nuclear Receptor transcription pathway | IEA |
| R-MMU-392499 | Metabolism of proteins | IEA |
| R-MMU-4090294 | SUMOylation of intracellular receptors | IEA |
| R-MMU-5362517 | Signaling by Retinoic Acid | IEA |
| R-MMU-597592 | Post-translational protein modification | IEA |
| R-MMU-73857 | RNA Polymerase II Transcription | IEA |
| R-MMU-74160 | Gene expression (Transcription) | IEA |
| R-MMU-9006931 | Signaling by Nuclear Receptors | IEA |
| R-MMU-9616222 | Transcriptional regulation of granulopoiesis | IEA |
| Keyword ID | Keyword Term |
|---|---|
| KW-0025 | Alternative splicing |
| KW-0963 | Cytoplasm |
| KW-0903 | Direct protein sequencing |
| KW-0238 | DNA-binding |
| KW-1017 | Isopeptide bond |
| KW-0479 | Metal-binding |
| KW-0488 | Methylation |
| KW-0539 | Nucleus |
| KW-0597 | Phosphoprotein |
| KW-0621 | Polymorphism |
| KW-0675 | Receptor |
| KW-1185 | Reference proteome |
| KW-0804 | Transcription |
| KW-0805 | Transcription regulation |
| KW-0832 | Ubl conjugation |
| KW-0862 | Zinc |
| KW-0863 | Zinc-finger |