C-It-Loci: A knowledge database for tissue-enriched loci.

Institute of Cardiovascular Regeneration, Goethe-University Frankfurt am Main

Gene Info

Description: retinoic acid receptor, alpha
Gene AccessionGene NameTax IDStrandPositionGene Biotype
ENSG00000131759 RARA 9606 + 17:40309192-40357643 protein_coding
  Transcript Accession Transcript Name Position Transcript Biotype
  ENST00000254066 RARA-001 40309194-40356796 protein_coding
  ENST00000394081 RARA-004 40342363-40356795 protein_coding
  ENST00000394086 RARA-003 40341388-40356795 protein_coding
  ENST00000394089 RARA-002 40318281-40356331 protein_coding
  ENST00000420042 RARA-006 40351387-40356213 processed_transcript
  ENST00000425707 RARA-007 40318285-40357643 protein_coding
  ENST00000475125 RARA-005 40345241-40354409 protein_coding
  ENST00000577646 RARA-008 40309192-40348336 protein_coding
  ENST00000579727 RARA-010 40342399-40349818 processed_transcript
  ENST00000582914 RARA-009 40322991-40331168 processed_transcript
  ENST00000617726 RARA-201 40342705-40357642 protein_coding

Expression Patterns

Heat Map
Numeric Values
Transcript'; AdiposeAdrenalBladderBrainBreastColonHeartKidneyLiverLungMuscleOvaryPlacentaTestisENST00000254066ENST00000394081ENST00000394086ENST00000394089ENST00000420042ENST00000425707ENST00000475125ENST00000577646ENST00000579727ENST00000617726
Transcript ID Adipose Adrenal Bladder Brain Breast Colon Heart Kidney Liver Lung Muscle Ovary Placenta Testis
ENST00000254066 N/A N/A 0.860±0.00 2.257±0.00 N/A N/A N/A 1.491±1.13 1.073±0.00 0.580±0.00 7.660±0.00 17.033±11.71 5.971±1.33 N/A
ENST00000394081 9.722±0.00 5.819±0.00 N/A N/A N/A 6.230±0.00 2.259±0.00 0.988±0.00 N/A 23.162±0.00 N/A N/A 3.547±0.26 7.645±0.00
ENST00000394086 N/A N/A N/A N/A N/A N/A N/A N/A 3.585±0.00 15.963±0.00 N/A 11.569±0.00 N/A N/A
ENST00000394089 9.775±0.00 8.075±0.00 N/A N/A 5.703±4.42 7.884±0.00 2.165±0.00 0.436±0.00 0.449±0.00 1.069±0.00 7.934±0.00 15.667±5.70 6.503±1.55 7.772±0.82
ENST00000420042 15.140±0.00 12.361±0.00 N/A 7.197±0.00 16.747±0.00 15.537±0.00 N/A 12.647±0.00 N/A 1.877±0.00 N/A 2.522±0.00 N/A 18.900±0.00
ENST00000425707 N/A 3.882±0.00 N/A 2.150±0.00 N/A N/A 2.165±0.00 3.402±0.00 N/A 10.395±0.00 7.983±0.00 9.713±6.10 N/A N/A
ENST00000475125 N/A N/A 1.614±0.00 0.791±0.00 N/A 0.666±0.00 0.322±0.00 1.543±0.00 N/A 3.458±0.00 N/A 40.718±0.00 21.712±0.00 26.397±0.00
ENST00000577646 N/A N/A N/A 1.223±0.00 N/A N/A 0.622±0.00 N/A N/A N/A N/A 3.842±0.00 N/A N/A
ENST00000579727 N/A N/A N/A N/A N/A N/A N/A N/A N/A N/A 4.579±0.00 N/A N/A N/A
ENST00000617726 N/A N/A N/A N/A N/A N/A N/A N/A 1.292±0.91 0.677±0.00 N/A 6.641±0.25 9.074±2.54 5.411±0.00

Conserved Regions

Region IDSub-RegionRegion TypePosition
CIL_00098Y CIL_00098Y_0001 VISTA 17:39768583-40372873
CIL_0002GL CIL_0002GL_0001 CGP 17:40287633-40357643
CIL_00050G CIL_00050G_0001 CGP 17:40309192-40363815

Gene Ontology
GO IDEvidence TypeGO Description
GO:0000122 IEA negative regulation of transcription from RNA polymerase II promoter
GO:0000790 IDA nuclear chromatin
GO:0000900 IEA translation repressor activity, nucleic acid binding
GO:0000977 IEA RNA polymerase II regulatory region sequence-specific DNA binding
GO:0001012 IEA RNA polymerase II regulatory region DNA binding
GO:0001657 IEA ureteric bud development
GO:0001843 IEA neural tube closure
GO:0001889 IEA liver development
GO:0001972 IDA retinoic acid binding
GO:0002068 IEA glandular epithelial cell development
GO:0003148 IEA outflow tract septum morphogenesis
GO:0003417 IEA growth plate cartilage development
GO:0003677 IEA DNA binding
GO:0003700 IDA:IEA sequence-specific DNA binding transcription factor activity
GO:0003707 IEA steroid hormone receptor activity
GO:0003708 IDA retinoic acid receptor activity
GO:0003713 IMP transcription coactivator activity
GO:0003714 IDA transcription corepressor activity
GO:0004879 IEA ligand-activated sequence-specific DNA binding RNA polymerase II transcription factor activity
GO:0005102 IDA receptor binding
GO:0005515 IPI protein binding
GO:0005634 IDA:IEA nucleus
GO:0005654 TAS nucleoplasm
GO:0005737 IDA cytoplasm
GO:0006351 IEA transcription, DNA-templated
GO:0006355 IEA regulation of transcription, DNA-templated
GO:0006367 TAS transcription initiation from RNA polymerase II promoter
GO:0006468 IMP protein phosphorylation
GO:0007165 IDA signal transduction
GO:0007281 IEA germ cell development
GO:0007283 IEA spermatogenesis
GO:0007565 IEA female pregnancy
GO:0008134 IPI transcription factor binding
GO:0008144 IEA drug binding
GO:0008270 IEA zinc ion binding
GO:0008284 IMP positive regulation of cell proliferation
GO:0008285 IEA negative regulation of cell proliferation
GO:0008584 IEA male gonad development
GO:0009986 IC cell surface
GO:0010467 TAS gene expression
GO:0010628 IEA positive regulation of gene expression
GO:0010629 IEA negative regulation of gene expression
GO:0014068 IEA positive regulation of phosphatidylinositol 3-kinase signaling
GO:0017148 IEA negative regulation of translation
GO:0019899 IPI enzyme binding
GO:0019904 IPI protein domain specific binding
GO:0030425 IEA dendrite
GO:0030520 IDA intracellular estrogen receptor signaling pathway
GO:0030850 IEA prostate gland development
GO:0030852 IEA regulation of granulocyte differentiation
GO:0030853 IDA negative regulation of granulocyte differentiation
GO:0031076 IEA embryonic camera-type eye development
GO:0031490 IDA chromatin DNA binding
GO:0031641 IEA regulation of myelination
GO:0032355 IDA response to estradiol
GO:0032526 IMP response to retinoic acid
GO:0032689 IDA negative regulation of interferon-gamma production
GO:0032720 IDA negative regulation of tumor necrosis factor production
GO:0032736 IDA positive regulation of interleukin-13 production
GO:0032753 IDA positive regulation of interleukin-4 production
GO:0032754 IDA positive regulation of interleukin-5 production
GO:0033189 IEA response to vitamin A
GO:0034097 IEA response to cytokine
GO:0035014 IEA phosphatidylinositol 3-kinase regulator activity
GO:0035264 IEA multicellular organism growth
GO:0042981 IEA regulation of apoptotic process
GO:0043005 IEA neuron projection
GO:0043025 IEA neuronal cell body
GO:0043066 IEA negative regulation of apoptotic process
GO:0043277 IMP apoptotic cell clearance
GO:0043401 IEA steroid hormone mediated signaling pathway
GO:0043422 IPI protein kinase B binding
GO:0043551 IEA regulation of phosphatidylinositol 3-kinase activity
GO:0043565 IEA sequence-specific DNA binding
GO:0044212 IEA transcription regulatory region DNA binding
GO:0044323 IDA retinoic acid-responsive element binding
GO:0045471 IEA response to ethanol
GO:0045596 IEA negative regulation of cell differentiation
GO:0045630 IDA positive regulation of T-helper 2 cell differentiation
GO:0045666 IEA positive regulation of neuron differentiation
GO:0045787 IMP positive regulation of cell cycle
GO:0045892 IDA negative regulation of transcription, DNA-templated
GO:0045893 IDA positive regulation of transcription, DNA-templated
GO:0045944 IDA positive regulation of transcription from RNA polymerase II promoter
GO:0045947 IEA negative regulation of translational initiation
GO:0046982 IDA protein heterodimerization activity
GO:0048027 IEA mRNA 5'-UTR binding
GO:0048167 IEA regulation of synaptic plasticity
GO:0048384 IMP retinoic acid receptor signaling pathway
GO:0048471 IEA perinuclear region of cytoplasm
GO:0051018 IDA protein kinase A binding
GO:0051099 IMP positive regulation of binding
GO:0051897 IEA positive regulation of protein kinase B signaling
GO:0055012 IEA ventricular cardiac muscle cell differentiation
GO:0060010 IEA Sertoli cell fate commitment
GO:0060173 IEA limb development
GO:0060324 IEA face development
GO:0060348 IEA bone development
GO:0060534 IEA trachea cartilage development
GO:0060591 IEA chondroblast differentiation
GO:0061037 IEA negative regulation of cartilage development
GO:0070374 IEA positive regulation of ERK1 and ERK2 cascade
GO:0071222 IEA cellular response to lipopolysaccharide
GO:0071300 IDA cellular response to retinoic acid
GO:0071391 IDA cellular response to estrogen stimulus

Homologs

ENSEMBL Accession Gene Name Description Biotype Species
ENSDARG00000034893 rarab retinoic acid receptor, alpha b protein_coding Danio_rerio
ENSDARG00000056783 raraa retinoic acid receptor, alpha a protein_coding Danio_rerio
ENSMUSG00000037992 Rara retinoic acid receptor, alpha protein_coding Mus_musculus

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