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Rara Gene Detail
Summary
  • Symbol
    Rara
  • Name
    retinoic acid receptor, alpha
  • Synonyms
    RARalpha1, RAR alpha 1
  • Feature Type
    protein coding gene
  • IDs
    MGI:97856
    NCBI Gene: 19401
  • Gene Overview
    MyGene.info: RARA
  • Alliance
  • Transcription Start Sites
    17 TSS
Location &
Maps
more
  • Sequence Map
    Chr11:98927818-98974942 bp, + strand
  • From Ensembl annotation of GRCm38

    View this region in JBrowse

  • Genome Browsers
  • Genetic Map
    Chromosome 11, 62.76 cM, cytoband D-E1
  • Mapping Data
    15 experiments
Strain
Comparison
more
  • SNPs within 2kb
    111 from dbSNP Build 142
  • Strain Annotations
    18
  • RFLP
For selected strains:
Strain Gene Model ID Feature Type Coordinates Select Strains
C57BL/6J MGI_C57BL6J_97856
protein coding gene Chr11:98927813-98974942 (+)
129S1/SvImJ MGP_129S1SvImJ_G0019078
protein coding gene Chr11:101555293-101605251 (+)
A/J MGP_AJ_G0019046
protein coding gene Chr11:97286736-97337198 (+)
AKR/J MGP_AKRJ_G0019016
protein coding gene Chr11:100303343-100352071 (+)
BALB/cJ MGP_BALBcJ_G0019020
protein coding gene Chr11:97781487-97829777 (+)
C3H/HeJ MGP_C3HHeJ_G0018833
protein coding gene Chr11:100447965-100498718 (+)
C57BL/6NJ MGP_C57BL6NJ_G0019471
protein coding gene Chr11:104660023-104724829 (+)
CAROLI/EiJ MGP_CAROLIEiJ_G0017103
protein coding gene Chr11:94845026-94892235 (+)
CAST/EiJ MGP_CASTEiJ_G0018387
protein coding gene Chr11:101433194-101488529 (+)
CBA/J MGP_CBAJ_G0018804
protein coding gene Chr11:109032484-109082946 (+)
DBA/2J MGP_DBA2J_G0018912
protein coding gene Chr11:96849454-96898328 (+)
FVB/NJ MGP_FVBNJ_G0018901
protein coding gene Chr11:96363904-96412196 (+)
LP/J MGP_LPJ_G0018982
protein coding gene Chr11:102006266-102057753 (+)
NOD/ShiLtJ MGP_NODShiLtJ_G0018928
protein coding gene Chr11:108712325-108766676 (+)
NZO/HlLtJ MGP_NZOHlLtJ_G0019511
protein coding gene Chr11:100660831-100707986 (+)
PWK/PhJ MGP_PWKPhJ_G0018158
protein coding gene Chr11:97893653-97948560 (+)
SPRET/EiJ MGP_SPRETEiJ_G0017947
protein coding gene Chr11:100410038-100461376 (+)
WSB/EiJ MGP_WSBEiJ_G0018436
protein coding gene Chr11:100618045-100669919 (+)



Homology
more
  • Human Ortholog
    RARA, retinoic acid receptor alpha
  • Vertebrate Orthologs
    9
  • Human Ortholog
    RARA, retinoic acid receptor alpha
    Orthology source: HomoloGene, HGNC
  • Synonyms
    NR1B1, RAR
  • Links
    NCBI Gene ID: 5914
    neXtProt AC: NX_P10276
    UniProt: P10276

  • Chr Location
    17q21.2; chr17:40309171-40357643 (+)  GRCh38.p7

Human Diseases
more
  • Diseases
    1 with human RARA associations

Human Disease Mouse Models
      
IDs
View 6 models
Click on a disease name to see all genes associated with that disease.

  • Mutations/Alleles
    8 with disease annotations
  • References
    8 with disease annotations
Mutations,
Alleles, and
Phenotypes
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  • Phenotype Summary
    30 phenotypes from 5 alleles in 5 genetic backgrounds
    177 phenotypes from multigenic genotypes
    1 images
    134 phenotype references
Phenotype Overview

adipose tissue
behavior/neurological
cardiovascular system
cellular
craniofacial
digestive/alimentary system
embryo
endocrine/exocrine glands
growth/size/body
hearing/vestibular/ear
hematopoietic system
homeostasis/metabolism
immune system
integument
limbs/digits/tail
liver/biliary system
mortality/aging
muscle
neoplasm
nervous system
pigmentation
renal/urinary system
reproductive system
respiratory system
skeleton
taste/olfaction
vision/eye

Click cells to view annotations.
Homozygotes for targeted null mutations show high neonatal mortality due to maternal cannibalization, failure to thrive, and excess mortality during the postnatal period. Male survivors exhibit testicular degeneration.
Gene Ontology
(GO)
Classifications
less
  • All GO Annotations
  • GO References
Molecular Function

carbohydrate derivative binding
cytoskeletal protein binding
DNA binding
enzyme regulator
hydrolase
ligase
lipid binding
oxidoreductase
RNA binding
signaling receptor activity
signaling receptor binding
transcription
transferase
transporter
Biological Process

carbohydrate derivative metabolism
cell death
cell differentiation
cell population proliferation
cellular component organization
establishment of localization
homeostatic process
immune system process
lipid metabolic process
nucleic acid-templated transcription
protein metabolic process
response to stimulus
signaling
system development
Cellular Component

cell projection
cytoplasmic vesicle
cytoskeleton
cytosol
endoplasmic reticulum
endosome
extracellular region
Golgi apparatus
mitochondrion
non-membrane-bounded organelle
nucleus
organelle envelope
organelle lumen
plasma membrane
synapse
vacuole
Click cells to view annotations.
Expression
less
Expression Overview

early conceptus
embryo ectoderm
embryo endoderm
embryo mesoderm
embryo mesenchyme
extraembryonic component
alimentary system
auditory system
branchial arches
cardiovascular system
connective tissue
endocrine system
exocrine system
hemolymphoid system
integumental system
limbs
liver and biliary system
musculoskeletal system
nervous system
olfactory system
reproductive system
respiratory system
urinary system
visual system
Click cells to view annotations.


  • Assay Results
  • Tissues
  • cDNA Data
  • Literature Summary
  • Comparison Matrix
  • Interactions
    less
    Sequences &
    Gene Models
    less
    Representative SequencesLengthStrain/SpeciesFlank
    genomic ENSMUSG00000037992 Ensembl Gene Model | MGI Sequence Detail 47125 C57BL/6J ±  kb
    transcript ENSMUST00000107474 Ensembl | MGI Sequence Detail 2380 Not Applicable  
    polypeptide ENSMUSP00000103098 Ensembl | MGI Sequence Detail 462 Not Applicable  
    For the selected sequence
    Protein
    Information
    less
    Molecular
    Reagents
    less
    • All nucleic 101
      Genomic 5
      cDNA 69
      Primer pair 18
      Other 9

      Microarray probesets 3
    Other
    Accession IDs
    less
    MGD-MRK-13766
    References
    more
    • Summaries
      All 377
      Developmental Gene Expression 91
      Diseases 8
      Gene Ontology 41
      Phenotypes 134
    • Earliest
      J:9853 Harada M, et al., Strain difference and mode of inheritance of the susceptibility to passive cutaneous anaphylaxis mediated by allogeneic IgE antibody in the mouse. Immunol Invest. 1989 Jun;18(5):723-35
    • Latest
      J:267659 Zhong LR, et al., Retinoic Acid Receptor RARalpha-Dependent Synaptic Signaling Mediates Homeostatic Synaptic Plasticity at the Inhibitory Synapses of Mouse Visual Cortex. J Neurosci. 2018 Dec 5;38(49):10454-10466

    Contributing Projects:
    Mouse Genome Database (MGD), Gene Expression Database (GXD), Mouse Tumor Biology (MTB), Gene Ontology (GO), MouseCyc
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    last database update
    01/15/2019
    MGI 6.13
    The Jackson Laboratory