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    Ahdc1 AT hook, DNA binding motif, containing 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 362617, updated on 2-Nov-2024

    Summary

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    Official Symbol
    Ahdc1provided by RGD
    Official Full Name
    AT hook, DNA binding motif, containing 1provided by RGD
    Primary source
    RGD:1310031
    See related
    EnsemblRapid:ENSRNOG00000042855 AllianceGenome:RGD:1310031
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    RGD1310031
    Summary
    Predicted to enable DNA-binding transcription factor activity and promoter-enhancer loop anchoring activity. Predicted to be involved in mesoderm formation and skin morphogenesis. Predicted to be active in nucleus. Human ortholog(s) of this gene implicated in Xia-Gibbs Syndrome. Orthologous to human AHDC1 (AT-hook DNA binding motif containing 1). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Heart (RPKM 62.3), Kidney (RPKM 55.9) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Ahdc1 in Genome Data Viewer
    Location:
    5q36
    Exon count:
    11
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 5 NC_086023.1 (150512182..150578804)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 5 NC_051340.1 (145228228..145294170)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 5 NC_005104.4 (151209894..151277192)

    Chromosome 5 - NC_086023.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC120102995 Neighboring gene uncharacterized LOC108351145 Neighboring gene FGR proto-oncogene, Src family tyrosine kinase Neighboring gene uncharacterized LOC120102997 Neighboring gene WASP family member 2 Neighboring gene G protein-coupled receptor 3

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • 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

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    Related articles in PubMed

    1. Gene and alternative splicing annotation with AIR. Florea L, et al. Genome Res, 2005 Jan. PMID 15632090, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables DNA-binding transcription factor activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables promoter-enhancer loop anchoring activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in mesoderm formation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of DNA-templated transcription IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in skin morphogenesis ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    is_active_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    transcription factor Gibbin
    Names
    A.T hook DNA-binding motif-containing protein 1
    AT-hook DNA-binding motif-containing protein 1

    NCBI Reference Sequences (RefSeq)

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    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_001134956.1 → NP_001128428.1  transcription factor Gibbin

      See identical proteins and their annotated locations for NP_001128428.1

      Status: PROVISIONAL

      Source sequence(s)
      JAXUCZ010000005
      UniProtKB/TrEMBL
      A6ISV7, D4A5R3
      Conserved Domains (2) summary
      PHA03247
      Location:856 → 1047
      PHA03247; large tegument protein UL36; Provisional
      pfam15735
      Location:590 → 638
      DUF4683; Domain of unknown function (DUF4683)

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

    Reference GRCr8

    Genomic

    1. NC_086023.1 Reference GRCr8

      Range
      150512182..150578804
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039110398.2 → XP_038966326.1  transcription factor Gibbin isoform X1

      UniProtKB/TrEMBL
      A6ISV7, D4A5R3
      Related
      ENSRNOP00000084516.1, ENSRNOT00000097308.2
      Conserved Domains (2) summary
      PHA03247
      Location:856 → 1047
      PHA03247; large tegument protein UL36; Provisional
      pfam15735
      Location:590 → 638
      DUF4683; Domain of unknown function (DUF4683)

    2. XM_039110397.2 → XP_038966325.1  transcription factor Gibbin isoform X1

      UniProtKB/TrEMBL
      A6ISV7, D4A5R3
      Related
      ENSRNOP00000103567.1, ENSRNOT00000127652.1
      Conserved Domains (2) summary
      PHA03247
      Location:856 → 1047
      PHA03247; large tegument protein UL36; Provisional
      pfam15735
      Location:590 → 638
      DUF4683; Domain of unknown function (DUF4683)

    3. XM_017593517.3 → XP_017449006.1  transcription factor Gibbin isoform X1

      UniProtKB/TrEMBL
      A6ISV7, D4A5R3
      Conserved Domains (2) summary
      PHA03247
      Location:856 → 1047
      PHA03247; large tegument protein UL36; Provisional
      pfam15735
      Location:590 → 638
      DUF4683; Domain of unknown function (DUF4683)

    4. XM_008764151.4 → XP_008762373.1  transcription factor Gibbin isoform X1

      See identical proteins and their annotated locations for XP_008762373.1

      UniProtKB/TrEMBL
      A6ISV7, D4A5R3
      Conserved Domains (2) summary
      PHA03247
      Location:856 → 1047
      PHA03247; large tegument protein UL36; Provisional
      pfam15735
      Location:590 → 638
      DUF4683; Domain of unknown function (DUF4683)

    5. XM_008764152.4 → XP_008762374.1  transcription factor Gibbin isoform X1

      See identical proteins and their annotated locations for XP_008762374.1

      UniProtKB/TrEMBL
      A6ISV7, D4A5R3
      Related
      ENSRNOP00000096957.1, ENSRNOT00000100034.2
      Conserved Domains (2) summary
      PHA03247
      Location:856 → 1047
      PHA03247; large tegument protein UL36; Provisional
      pfam15735
      Location:590 → 638
      DUF4683; Domain of unknown function (DUF4683)

    6. XM_063288061.1 → XP_063144131.1  transcription factor Gibbin isoform X1

      UniProtKB/TrEMBL
      D4A5R3
      Related
      ENSRNOP00000100587.1, ENSRNOT00000123873.1

    7. XM_063288060.1 → XP_063144130.1  transcription factor Gibbin isoform X1

      UniProtKB/TrEMBL
      D4A5R3
      Related
      ENSRNOP00000091641.1, ENSRNOT00000096702.2
    Nucleotide Protein Strain
    Heading Accession and Version

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