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

Institute of Cardiovascular Regeneration, Goethe-University Frankfurt am Main

Transcript Info
Description: retinoic acid receptor, gamma
Transcript Accession Transcript Name Contained in Gene Tax ID Strand Position Biotype
ENSMUST00000043172 Rarg-001 ENSMUSG00000001288 10090 - 15:102234938-102257517 protein_coding

Expression Patterns

Heat Map
Numeric Values
Transcript'; AdiposeAdrenalBladderBrainBreastColonHeartKidneyLiverLungMuscleOvaryPlacentaTestisENSMUST00000043172
Transcript ID Adipose Adrenal Bladder Brain Breast Colon Heart Kidney Liver Lung Muscle Ovary Placenta Testis
ENSMUST00000043172 5.073±1.72 3.417±0.48 14.063±2.13 0.940±0.00 8.489±0.52 3.534±0.33 1.205±0.18 2.928±1.10 0.414±0.14 8.863±3.09 0.725±0.23 5.244±1.27 0.986±0.52 0.309±0.10

Conserved Regions

Region IDSub-RegionRegion TypePosition
CIL_00060L CIL_00060L_0002 CGP 15:102215995-102257517
CIL_00060M CIL_00060M_0002 CGP 15:102234938-102281744

Gene Ontology

GO IDEvidence TypeGO Description
GO:0000122 IDA negative regulation of transcription from RNA polymerase II promoter
GO:0000790 IDA nuclear chromatin
GO:0000977 IDA RNA polymerase II regulatory region sequence-specific DNA binding
GO:0001843 IGI neural tube closure
GO:0002063 IMP chondrocyte development
GO:0002068 IGI glandular epithelial cell development
GO:0003406 IGI retinal pigment epithelium development
GO:0003417 IGI growth plate cartilage development
GO:0003430 IMP growth plate cartilage chondrocyte growth
GO:0003677 IC DNA binding
GO:0003700 IDA sequence-specific DNA binding transcription factor activity
GO:0003707 IEA steroid hormone receptor activity
GO:0003708 IEA retinoic acid receptor activity
GO:0005515 IPI protein binding
GO:0005634 IDA nucleus
GO:0005667 IDA transcription factor complex
GO:0006351 IEA transcription, DNA-templated
GO:0008270 IEA zinc ion binding
GO:0008284 IGI positive regulation of cell proliferation
GO:0008285 IGI negative regulation of cell proliferation
GO:0009952 IGI anterior/posterior pattern specification
GO:0010468 IGI regulation of gene expression
GO:0010628 IDA positive regulation of gene expression
GO:0031076 IGI embryonic camera-type eye development
GO:0031641 IEA regulation of myelination
GO:0032331 IMP negative regulation of chondrocyte differentiation
GO:0032526 IEA response to retinoic acid
GO:0035116 IGI embryonic hindlimb morphogenesis
GO:0035264 IGI multicellular organism growth
GO:0043010 IGI camera-type eye development
GO:0043065 IGI positive regulation of apoptotic process
GO:0043066 IGI negative regulation of apoptotic process
GO:0043068 IGI positive regulation of programmed cell death
GO:0043401 IEA steroid hormone mediated signaling pathway
GO:0045596 IMP negative regulation of cell differentiation
GO:0045944 IDA positive regulation of transcription from RNA polymerase II promoter
GO:0046965 IMP retinoid X receptor binding
GO:0048048 IGI embryonic eye morphogenesis
GO:0048384 IMP retinoic acid receptor signaling pathway
GO:0048608 IMP reproductive structure development
GO:0048732 IMP gland development
GO:0060041 IGI retina development in camera-type eye
GO:0060173 IGI:IMP limb development
GO:0060324 IGI face development
GO:0060348 IGI:IMP bone development
GO:0060349 IGI bone morphogenesis
GO:0060429 IMP epithelium development
GO:0060534 IMP trachea cartilage development
GO:0060740 IMP prostate gland epithelium morphogenesis
GO:0061037 IMP negative regulation of cartilage development
GO:0070384 IMP Harderian gland development
GO:0071300 IDA cellular response to retinoic acid

Homologs

ENSEMBL Accession Gene Name Biotype Species E-Value Bit Score
ENSDART00000099040 nr1d2a-201 protein_coding Danio_rerio 0.000000007 68
ENSDART00000153675 nr1d2a-202 protein_coding Danio_rerio 0.000000007 68
ENSDART00000128167 nr1d2a-001 protein_coding Danio_rerio 0.000000007 68
ENSDART00000148588 nr1d2a-002 retained_intron Danio_rerio 0.000000007 68
ENST00000338561 RARG-004 protein_coding Homo_sapiens 0 1764
ENST00000394426 RARG-201 protein_coding Homo_sapiens 0 2377
ENST00000425354 RARG-001 protein_coding Homo_sapiens 0 3133
ENST00000543726 RARG-005 protein_coding Homo_sapiens 0 1555
ENST00000543762 RARG-002 processed_transcript Homo_sapiens 0 1519
ENST00000546377 RARG-006 processed_transcript Homo_sapiens 0 333
ENST00000546717 RARG-017 protein_coding Homo_sapiens 0 377
ENST00000548317 RARG-018 retained_intron Homo_sapiens 0 481
ENST00000549859 RARG-009 processed_transcript Homo_sapiens 0 263
ENST00000550265 RARG-003 retained_intron Homo_sapiens 0 843
ENST00000550350 RARG-008 processed_transcript Homo_sapiens 0 322
ENST00000550362 RARG-012 protein_coding Homo_sapiens 0 477
ENST00000550721 RARG-013 processed_transcript Homo_sapiens 0 398
ENST00000551158 RARG-011 protein_coding Homo_sapiens 0 545
ENST00000551501 RARG-007 processed_transcript Homo_sapiens 0 337
ENST00000552901 RARG-010 processed_transcript Homo_sapiens 0 270

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