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    Adarb1 adenosine deaminase, RNA-specific, B1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 25367, updated on 18-Apr-2019

    Summary

    Official Symbol
    Adarb1provided by RGD
    Official Full Name
    adenosine deaminase, RNA-specific, B1provided by RGD
    Primary source
    RGD:2033
    See related
    Ensembl:ENSRNOG00000001227
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    Red1; Adar2
    Summary
    This gene encodes a double-stranded-RNA-specific adenosine deaminase that is involved in editing pre-mRNAs by site-specific conversion of adenosine (A) to inosine (I). Substrates for this enzyme include ionotropic glutamate receptors (GluR2-6) and serotonin receptor (5HT2C). Studies in rodents have shown that this protein can modify its own pre-mRNA by A->I editing to create a novel acceptor splice site, alternative splicing to which results in down regulation of its protein expression. Additional splicing events result in transcript variants encoding different isoforms. [provided by RefSeq, Jul 2008]
    Expression
    Biased expression in Brain (RPKM 160.8), Lung (RPKM 110.9) and 9 other tissues See more
    Orthologs

    Genomic context

    See Adarb1 in Genome Data Viewer
    Location:
    20p12
    Exon count:
    14
    Annotation release Status Assembly Chr Location
    106 current Rnor_6.0 (GCF_000001895.5) 20 NC_005119.4 (11972352..12101022)
    104 previous assembly Rnor_5.0 (GCF_000001895.4) 20 NC_005119.3 (14137226..14264945)

    Chromosome 20 - NC_005119.4Genomic Context describing neighboring genes Neighboring gene family with sequence similarity 207, member A Neighboring gene non-metastatic cells 2, protein (NM23B) expressed in, pseudogene 1 Neighboring gene uncharacterized LOC102556115 Neighboring gene protein O-fucosyltransferase 2

    Genomic regions, transcripts, and products

    Expression

    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

    GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

    Pathways from BioSystems

    General gene information

    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    RNA binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    RNA binding IEA
    Inferred from Electronic Annotation
    more info
     
    RNA binding ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    RNA binding ISS
    Inferred from Sequence or Structural Similarity
    more info
    PubMed 
    adenosine deaminase activity IEA
    Inferred from Electronic Annotation
    more info
     
    double-stranded RNA adenosine deaminase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    double-stranded RNA adenosine deaminase activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    double-stranded RNA adenosine deaminase activity ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    double-stranded RNA adenosine deaminase activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    PubMed 
    double-stranded RNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    double-stranded RNA binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    double-stranded RNA binding ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    double-stranded RNA binding ISS
    Inferred from Sequence or Structural Similarity
    more info
    PubMed 
    metal ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    protein homodimerization activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    tRNA-specific adenosine deaminase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    Process Evidence Code Pubs
    RNA processing IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    RNA processing IEA
    Inferred from Electronic Annotation
    more info
     
    RNA processing ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    RNA processing ISS
    Inferred from Sequence or Structural Similarity
    more info
    PubMed 
    adenosine to inosine editing IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    adenosine to inosine editing IDA
    Inferred from Direct Assay
    more info
    PubMed 
    adenosine to inosine editing IEA
    Inferred from Electronic Annotation
    more info
     
    adenosine to inosine editing ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    adenosine to inosine editing ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    base conversion or substitution editing IDA
    Inferred from Direct Assay
    more info
    PubMed 
    brain development IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    facial nerve morphogenesis IEA
    Inferred from Electronic Annotation
    more info
     
    facial nerve morphogenesis ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    hypoglossal nerve morphogenesis IEA
    Inferred from Electronic Annotation
    more info
     
    hypoglossal nerve morphogenesis ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    innervation IEA
    Inferred from Electronic Annotation
    more info
     
    innervation ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    mRNA modification IDA
    Inferred from Direct Assay
    more info
    PubMed 
    mRNA processing IEA
    Inferred from Electronic Annotation
    more info
     
    motor behavior IEA
    Inferred from Electronic Annotation
    more info
     
    motor behavior ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    motor neuron apoptotic process IEA
    Inferred from Electronic Annotation
    more info
     
    motor neuron apoptotic process ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    multicellular organism growth IEA
    Inferred from Electronic Annotation
    more info
     
    multicellular organism growth ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    muscle tissue morphogenesis IEA
    Inferred from Electronic Annotation
    more info
     
    muscle tissue morphogenesis ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    negative regulation of cell migration IEA
    Inferred from Electronic Annotation
    more info
     
    negative regulation of cell migration ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    negative regulation of cell migration ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    negative regulation of cell proliferation IEA
    Inferred from Electronic Annotation
    more info
     
    negative regulation of cell proliferation ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    negative regulation of cell proliferation ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    negative regulation of protein kinase activity by regulation of protein phosphorylation IEA
    Inferred from Electronic Annotation
    more info
     
    negative regulation of protein kinase activity by regulation of protein phosphorylation ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    negative regulation of protein kinase activity by regulation of protein phosphorylation ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    neuromuscular process controlling posture IEA
    Inferred from Electronic Annotation
    more info
     
    neuromuscular process controlling posture ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    neuromuscular synaptic transmission IEA
    Inferred from Electronic Annotation
    more info
     
    neuromuscular synaptic transmission ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    positive regulation of mRNA processing IDA
    Inferred from Direct Assay
    more info
    PubMed 
    positive regulation of viral genome replication IEA
    Inferred from Electronic Annotation
    more info
     
    positive regulation of viral genome replication ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    positive regulation of viral genome replication ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    regulation of cell cycle IEA
    Inferred from Electronic Annotation
    more info
     
    regulation of cell cycle ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    regulation of cell cycle ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    spinal cord ventral commissure morphogenesis IEA
    Inferred from Electronic Annotation
    more info
     
    spinal cord ventral commissure morphogenesis ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    Component Evidence Code Pubs
    cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    cytosol IEA
    Inferred from Electronic Annotation
    more info
     
    cytosol ISO
    Inferred from Sequence Orthology
    more info
     
    nucleolus IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    nucleolus IDA
    Inferred from Direct Assay
    more info
    PubMed 
    nucleolus IEA
    Inferred from Electronic Annotation
    more info
     
    nucleolus ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    nucleoplasm IDA
    Inferred from Direct Assay
    more info
    PubMed 
    nucleoplasm IEA
    Inferred from Electronic Annotation
    more info
     
    nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    nucleus ISO
    Inferred from Sequence Orthology
    more info
    PubMed 

    General protein information

    Preferred Names
    double-stranded RNA-specific editase 1
    Names
    RNA editing deaminase of glutamate receptors
    RNA-editing deaminase 1
    RNA-editing enzyme 1
    double stranded RNA specific deaminase RED1
    dsRNA adenosine deaminase
    NP_001104525.1
    NP_001104526.1
    NP_001104527.1
    NP_037026.2
    XP_006256337.1
    XP_006256338.1
    XP_008771086.1
    XP_017457040.1

    NCBI Reference Sequences (RefSeq)

    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_001111055.1NP_001104525.1  double-stranded RNA-specific editase 1 isoform 2

      See identical proteins and their annotated locations for NP_001104525.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2, also referred to as 2a) uses an alternate, in-frame donor splice site at one of the internal coding exons, compared to transcript variant 1. This results in a shorter isoform (2), missing a 10 aa segment found in isoform 1.
      Source sequence(s)
      AABR07044594, BF388249, CB556744, CB576423, CB720085, CB801553, CK840559, U43534
      UniProtKB/Swiss-Prot
      P51400
      Related
      ENSRNOP00000069261.1, ENSRNOT00000083851.1
      Conserved Domains (2) summary
      smart00552
      Location:322698
      ADEAMc; tRNA-specific and double-stranded RNA adenosine deaminase (RNA-specific editase)
      cd00048
      Location:79142
      DSRM; Double-stranded RNA binding motif. Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase III, ...
    2. NM_001111056.1NP_001104526.1  double-stranded RNA-specific editase 1 isoform 3

      See identical proteins and their annotated locations for NP_001104526.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (3, also referred to as 2f) results from an auto RNA editing event (AA->AI) in the intronic sequence that creates a novel acceptor splice site, splicing to which inserts 47 nt into the coding region causing a frame-shift, compared to transcript variant 1. Translation initiation from the upstream AUG will result in a very short protein of 82 aa. However, studies reported in PMID:10331393 show that leaky translation initiation from an in-frame, downstream AUG allows some protein expression, and that this isoform (3) exhibits RNA editing activity. Isoform 3 is 24 aa shorter at the N-terminus compared to isoform 1.
      Source sequence(s)
      AABR07044593, AABR07044594, BF388249, CB576423, CB801553, CK840559, U43534
      UniProtKB/Swiss-Prot
      P51400
      UniProtKB/TrEMBL
      G3V649
      Related
      ENSRNOP00000001642.6, ENSRNOT00000001642.6
      Conserved Domains (2) summary
      smart00552
      Location:298684
      ADEAMc; tRNA-specific and double-stranded RNA adenosine deaminase (RNA-specific editase)
      cd00048
      Location:55118
      DSRM; Double-stranded RNA binding motif. Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase III, ...
    3. NM_001111057.1NP_001104527.1  double-stranded RNA-specific editase 1 isoform 4

      See identical proteins and their annotated locations for NP_001104527.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (4, also referred to as 2e) results from an auto RNA editing event (AA->AI) in the intronic sequence that creates a novel acceptor splice site, splicing to which inserts 47 nt into the coding region causing a frame-shift, compared to transcript variant 2. Translation initiation from the upstream AUG will result in a very short protein of 82 aa. However, studies reported in PMID:10331393 show that leaky translation initiation from an in-frame, downstream AUG allows some protein expression, and that this isoform (3) exhibits RNA editing activity. Isoform 4 is 24 aa shorter at the N-terminus compared to isoform 2.
      Source sequence(s)
      AABR07044593, AABR07044594, BF388249, CB556744, CB576423, CB801553, CK840559, U43534
      UniProtKB/Swiss-Prot
      P51400
      Conserved Domains (2) summary
      smart00552
      Location:298674
      ADEAMc; tRNA-specific and double-stranded RNA adenosine deaminase (RNA-specific editase)
      cd00048
      Location:55118
      DSRM; Double-stranded RNA binding motif. Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase III, ...
    4. NM_012894.2NP_037026.2  double-stranded RNA-specific editase 1 isoform 1

      See identical proteins and their annotated locations for NP_037026.2

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1, also referred to as 2b) encodes the longest isoform (1).
      Source sequence(s)
      AABR07044594, BF388249, CB576423, CB720085, CB801553, CK840559, U43534
      UniProtKB/Swiss-Prot
      P51400
      Conserved Domains (2) summary
      smart00552
      Location:322708
      ADEAMc; tRNA-specific and double-stranded RNA adenosine deaminase (RNA-specific editase)
      cd00048
      Location:79142
      DSRM; Double-stranded RNA binding motif. Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase III, ...

    RefSeqs of Annotated Genomes: Rattus norvegicus Annotation Release 106 details...Open this link in a new tab

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference Rnor_6.0 Primary Assembly

    Genomic

    1. NC_005119.4 Reference Rnor_6.0 Primary Assembly

      Range
      11972352..12101022
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017601551.1XP_017457040.1  double-stranded RNA-specific editase 1 isoform X3

      Conserved Domains (2) summary
      smart00552
      Location:322708
      ADEAMc; tRNA-specific and double-stranded RNA adenosine deaminase (RNA-specific editase)
      cd00048
      Location:79142
      DSRM; Double-stranded RNA binding motif. Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase III, ...
    2. XM_008772864.1XP_008771086.1  double-stranded RNA-specific editase 1 isoform X3

      See identical proteins and their annotated locations for XP_008771086.1

      Conserved Domains (2) summary
      smart00552
      Location:322708
      ADEAMc; tRNA-specific and double-stranded RNA adenosine deaminase (RNA-specific editase)
      cd00048
      Location:79142
      DSRM; Double-stranded RNA binding motif. Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase III, ...
    3. XM_006256275.3XP_006256337.1  double-stranded RNA-specific editase 1 isoform X1

      Conserved Domains (2) summary
      smart00552
      Location:386772
      ADEAMc; tRNA-specific and double-stranded RNA adenosine deaminase (RNA-specific editase)
      cd00048
      Location:143206
      DSRM; Double-stranded RNA binding motif. Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase III, ...
    4. XM_006256276.3XP_006256338.1  double-stranded RNA-specific editase 1 isoform X2

      Conserved Domains (2) summary
      smart00552
      Location:386762
      ADEAMc; tRNA-specific and double-stranded RNA adenosine deaminase (RNA-specific editase)
      cd00048
      Location:143206
      DSRM; Double-stranded RNA binding motif. Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase III, ...

    Alternate Rn_Celera

    Genomic

    1. AC_000088.1 Alternate Rn_Celera

      Range
      12725154..12852814
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
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