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    rfx1a regulatory factor X, 1a (influences HLA class II expression) [ Gadus morhua (Atlantic cod) ]

    Gene ID: 115560701, updated on 17-Mar-2024

    Summary

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    Gene symbol
    rfx1a
    Gene description
    regulatory factor X, 1a (influences HLA class II expression)
    See related
    Ensembl:ENSGMOG00000008963
    Gene type
    protein coding
    RefSeq status
    MODEL
    Organism
    Gadus morhua
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Neoteleostei; Acanthomorphata; Zeiogadaria; Gadariae; Gadiformes; Gadoidei; Gadidae; Gadus
    Orthologs
    zebrafish all
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    Genomic context

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    See rfx1a in Genome Data Viewer
    Location:
    chromosome: 2
    Exon count:
    19
    Annotation release Status Assembly Chr Location
    100 current gadMor3.0 (GCF_902167405.1) 2 NC_044049.1 (13556031..13581499)

    Chromosome 2 - NC_044049.1Genomic Context describing neighboring genes Neighboring gene interleukin 12 receptor, beta 2a, like Neighboring gene relaxin 3a Neighboring gene ATPase family AAA domain-containing protein 5-like Neighboring gene uncharacterized LOC115560728 Neighboring gene trinucleotide repeat-containing gene 6C protein-like

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_044049.1 Chromosome 2 Reference gadMor3.0 Primary Assembly

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. Gene evolution and gene expression after whole genome duplication in fish: the PhyloFish database. Pasquier J, et al. BMC Genomics, 2016 May 18. PMID 27189481, Free PMC Article
    2. Manual GO annotation of predictive protein signatures: the InterPro approach to GO curation. Burge S, et al. Database (Oxford), 2012. PMID 22301074, Free PMC Article
    3. TreeGrafter: phylogenetic tree-based annotation of proteins with Gene Ontology terms and other annotations. Tang H, et al. Bioinformatics, 2019 Feb 1. PMID 30032202, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    Gene Ontology Provided by RefSeq

    Function Evidence Code Pubs
    enables DNA-binding transcription factor activity, RNA polymerase II-specific IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in regulation of transcription by RNA polymerase II IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    MHC class II regulatory factor RFX1-like

    NCBI Reference Sequences (RefSeq)

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    RefSeqs of Annotated Genomes: Gadus morhua Annotation Release 100 details...Open this link in a new tab

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

    Reference gadMor3.0 Primary Assembly

    Genomic

    1. NC_044049.1 Reference gadMor3.0 Primary Assembly

      Range
      13556031..13581499
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_030380218.1 → XP_030236078.1  MHC class II regulatory factor RFX1-like isoform X1

      UniProtKB/TrEMBL
      A0A8C4Z8N7, A0A8C5CYV5
      Conserved Domains (2) summary
      pfam02257
      Location:379 → 451
      RFX_DNA_binding; RFX DNA-binding domain
      pfam04589
      Location:134 → 262
      RFX1_trans_act; RFX1 transcription activation region

    2. XM_030380235.1 → XP_030236095.1  MHC class II regulatory factor RFX1-like isoform X2

      UniProtKB/TrEMBL
      A0A8C4Z8N7
      Conserved Domains (2) summary
      pfam02257
      Location:379 → 449
      RFX_DNA_binding; RFX DNA-binding domain
      pfam04589
      Location:134 → 262
      RFX1_trans_act; RFX1 transcription activation region

    3. XM_030380252.1 → XP_030236112.1  MHC class II regulatory factor RFX1-like isoform X4

      UniProtKB/TrEMBL
      A0A8C4Z8N7
      Related
      ENSGMOP00000009591.2, ENSGMOT00000009850.2
      Conserved Domains (2) summary
      pfam02257
      Location:359 → 434
      RFX_DNA_binding; RFX DNA-binding domain
      pfam04589
      Location:134 → 262
      RFX1_trans_act; RFX1 transcription activation region

    4. XM_030380245.1 → XP_030236105.1  MHC class II regulatory factor RFX1-like isoform X3

      UniProtKB/TrEMBL
      A0A8C4Z8N7
      Conserved Domains (2) summary
      pfam02257
      Location:377 → 449
      RFX_DNA_binding; RFX DNA-binding domain
      pfam04589
      Location:134 → 260
      RFX1_trans_act; RFX1 transcription activation region

    5. XM_030380227.1 → XP_030236087.1  MHC class II regulatory factor RFX1-like isoform X1

      UniProtKB/TrEMBL
      A0A8C4Z8N7, A0A8C5CYV5
      Related
      ENSGMOP00000069253.1, ENSGMOT00000059690.1
      Conserved Domains (2) summary
      pfam02257
      Location:379 → 451
      RFX_DNA_binding; RFX DNA-binding domain
      pfam04589
      Location:134 → 262
      RFX1_trans_act; RFX1 transcription activation region
    Nucleotide Protein
    Heading Accession and Version

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