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    ATF7 activating transcription factor 7 [ Homo sapiens (human) ]

    Gene ID: 11016, updated on 21-Dec-2019

    Summary

    Official Symbol
    ATF7provided by HGNC
    Official Full Name
    activating transcription factor 7provided by HGNC
    Primary source
    HGNC:HGNC:792
    See related
    Ensembl:ENSG00000170653 MIM:606371
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    ATFA
    Expression
    Ubiquitous expression in lung (RPKM 9.8), fat (RPKM 9.2) and 25 other tissues See more
    Orthologs

    Genomic context

    See ATF7 in Genome Data Viewer
    Location:
    12q13.13
    Exon count:
    14
    Annotation release Status Assembly Chr Location
    109.20191205 current GRCh38.p13 (GCF_000001405.39) 12 NC_000012.12 (53507856..53626415, complement)
    105 previous assembly GRCh37.p13 (GCF_000001405.25) 12 NC_000012.11 (53901640..54020200, complement)

    Chromosome 12 - NC_000012.12Genomic Context describing neighboring genes Neighboring gene mitogen-activated protein kinase kinase kinase 12 Neighboring gene Sharpr-MPRA regulatory region 3466 Neighboring gene uncharacterized LOC100652999 Neighboring gene ATF7-NPFF readthrough Neighboring gene TARBP2 subunit of RISC loading complex Neighboring gene neuropeptide FF-amide peptide precursor Neighboring gene zinc finger protein 337 pseudogene Neighboring gene ribosomal protein L31 pseudogene 51 Neighboring gene ATP synthase membrane subunit c locus 2

    Genomic regions, transcripts, and products

    Expression

    • Project title: HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Apr 4 07:08:55 2018

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Phenotypes

    NHGRI GWAS Catalog

    Description
    A genome-wide association study in 19 633 Japanese subjects identified LHX3-QSOX2 and IGF1 as adult height loci.
    NHGRI GWA Catalog
    Genome-wide meta-analysis identifies new susceptibility loci for migraine.
    NHGRI GWA Catalog
    Identification, replication, and fine-mapping of Loci associated with adult height in individuals of african ancestry.
    NHGRI GWA Catalog
    Meta-analysis of genome-wide association studies of adult height in East Asians identifies 17 novel loci.
    NHGRI GWA Catalog

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Homology

    Clone Names

    • MGC57182

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    DNA binding IEA
    Inferred from Electronic Annotation
    more info
     
    DNA-binding transcription factor activity NAS
    Non-traceable Author Statement
    more info
    PubMed 
    DNA-binding transcription factor activity, RNA polymerase II-specific ISA
    Inferred from Sequence Alignment
    more info
     
    DNA-binding transcription factor activity, RNA polymerase II-specific ISM
    Inferred from Sequence Model
    more info
    PubMed 
    DNA-binding transcription factor activity, RNA polymerase II-specific NAS
    Non-traceable Author Statement
    more info
    PubMed 
    enzyme binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    metal ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    mitogen-activated protein kinase binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    transcription factor binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    Process Evidence Code Pubs
    regulation of transcription by RNA polymerase II IEA
    Inferred from Electronic Annotation
    more info
     
    regulation of transcription, DNA-templated IDA
    Inferred from Direct Assay
    more info
    PubMed 
    viral process IEA
    Inferred from Electronic Annotation
    more info
     
    Component Evidence Code Pubs
    cytoplasm IEA
    Inferred from Electronic Annotation
    more info
     
    nuclear chromatin ISA
    Inferred from Sequence Alignment
    more info
     
    nuclear periphery IDA
    Inferred from Direct Assay
    more info
    PubMed 
    nucleoplasm IEA
    Inferred from Electronic Annotation
    more info
     
    nucleus NAS
    Non-traceable Author Statement
    more info
    PubMed 

    General protein information

    Preferred Names
    cyclic AMP-dependent transcription factor ATF-7
    Names
    transcription factor ATF-A

    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_001130060.2NP_001123532.1  cyclic AMP-dependent transcription factor ATF-7 isoform 3

      See identical proteins and their annotated locations for NP_001123532.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) uses an alternate in-frame splice site in an internal exon, compared to variant 2, resulting in a shorter isoform (3, also known as ATFa1 or ATF-a delta), compared to isoform 2. There are no publicly available transcripts representing this variant; it is supported by data in PMIDs 1694576 and 8939888, and by alternative splicing annotation on accessions X52943.1 and X57197.1.
      Source sequence(s)
      AC023509, BP279417, BP312300, BQ184780, DB047160, X52943
      UniProtKB/Swiss-Prot
      P17544
      Conserved Domains (3) summary
      cd12192
      Location:4784
      GCN4_cent; GCN4 central activation domain-like acidic activation domain
      cd14687
      Location:313373
      bZIP_ATF2; Basic leucine zipper (bZIP) domain of Activating Transcription Factor-2 (ATF-2) and similar proteins: a DNA-binding and dimerization domain
      sd00019
      Location:931
      ZF_C2H2; C2H2 Zn finger [structural motif]
    2. NM_001206682.1NP_001193611.1  cyclic AMP-dependent transcription factor ATF-7 isoform 4

      See identical proteins and their annotated locations for NP_001193611.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4) differs in the 3' coding region and 3' UTR, compared to variant 2, resulting in an isoform (4) with a distinct and shorter C-terminus, compared to isoform 2. Variants 4, 5, and 13 all encode the same isoform (4).
      Source sequence(s)
      AA679547, BC140006, DB047160
      Consensus CDS
      CCDS58238.1
      UniProtKB/Swiss-Prot
      P17544
      Related
      ENSP00000465192.1, ENST00000591397.1
      Conserved Domains (1) summary
      cd12192
      Location:4784
      GCN4_cent; GCN4 central activation domain-like acidic activation domain
    3. NM_001206683.1NP_001193612.1  cyclic AMP-dependent transcription factor ATF-7 isoform 4

      See identical proteins and their annotated locations for NP_001193612.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (5) differs in the 5' UTR, 3' coding region and 3' UTR, compared to variant 2, resulting in an isoform (4) with a distinct and shorter C-terminus, compared to isoform 2. Variants 4, 5, and 13 all encode the same isoform (4).
      Source sequence(s)
      AA679547, AC023509, BC042363, DB490927
      Consensus CDS
      CCDS58238.1
      UniProtKB/Swiss-Prot
      P17544
      Related
      ENSP00000456858.1, ENST00000548118.6
      Conserved Domains (1) summary
      cd12192
      Location:4784
      GCN4_cent; GCN4 central activation domain-like acidic activation domain
    4. NM_001366555.2NP_001353484.1  cyclic AMP-dependent transcription factor ATF-7 isoform 5

      Status: VALIDATED

      Description
      Transcript Variant: This variant (7) encodes the longest isoform (5).
      Source sequence(s)
      AC023509, AC073594
      Related
      ENSP00000449938.1, ENST00000548446.6
      Conserved Domains (3) summary
      cd12192
      Location:4784
      GCN4_cent; GCN4 central activation domain-like acidic activation domain
      cd14687
      Location:345405
      bZIP_ATF2; Basic leucine zipper (bZIP) domain of Activating Transcription Factor-2 (ATF-2) and similar proteins: a DNA-binding and dimerization domain
      sd00019
      Location:931
      ZF_C2H2; C2H2 Zn finger [structural motif]
    5. NM_001366556.2NP_001353485.1  cyclic AMP-dependent transcription factor ATF-7 isoform 2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (8), as well as variants 2 and 9, encodes isoform 2.
      Source sequence(s)
      AC023509, AC073594
      Related
      ENSP00000387406.3, ENST00000456903.8
      Conserved Domains (3) summary
      cd12192
      Location:4784
      GCN4_cent; GCN4 central activation domain-like acidic activation domain
      cd14687
      Location:334394
      bZIP_ATF2; Basic leucine zipper (bZIP) domain of Activating Transcription Factor-2 (ATF-2) and similar proteins: a DNA-binding and dimerization domain
      sd00019
      Location:931
      ZF_C2H2; C2H2 Zn finger [structural motif]
    6. NM_001366558.2NP_001353487.1  cyclic AMP-dependent transcription factor ATF-7 isoform 2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (9), as well as variants 2 and 8, encodes isoform 2.
      Source sequence(s)
      AC023509, AC073594
      Conserved Domains (3) summary
      cd12192
      Location:4784
      GCN4_cent; GCN4 central activation domain-like acidic activation domain
      cd14687
      Location:334394
      bZIP_ATF2; Basic leucine zipper (bZIP) domain of Activating Transcription Factor-2 (ATF-2) and similar proteins: a DNA-binding and dimerization domain
      sd00019
      Location:931
      ZF_C2H2; C2H2 Zn finger [structural motif]
    7. NM_001366561.2NP_001353490.1  cyclic AMP-dependent transcription factor ATF-7 isoform 8

      Status: VALIDATED

      Source sequence(s)
      AC023509, AC073594
      Conserved Domains (1) summary
      cd14687
      Location:279339
      bZIP_ATF2; Basic leucine zipper (bZIP) domain of Activating Transcription Factor-2 (ATF-2) and similar proteins: a DNA-binding and dimerization domain
    8. NM_001366562.1NP_001353491.1  cyclic AMP-dependent transcription factor ATF-7 isoform 4

      Status: VALIDATED

      Description
      Transcript Variant: This variant (13), as well as variants 4 and 5, encodes isoform 4.
      Source sequence(s)
      AC023509, AC073594
      Conserved Domains (1) summary
      cd12192
      Location:4784
      GCN4_cent; GCN4 central activation domain-like acidic activation domain
    9. NM_001366563.1NP_001353492.1  cyclic AMP-dependent transcription factor ATF-7 isoform 9

      Status: VALIDATED

      Source sequence(s)
      AC023509, AC073594
      Conserved Domains (1) summary
      cd12192
      Location:1854
      GCN4_cent; GCN4 central activation domain-like acidic activation domain
    10. NM_006856.3NP_006847.1  cyclic AMP-dependent transcription factor ATF-7 isoform 2

      See identical proteins and their annotated locations for NP_006847.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2), as well as variants 8 and 9, encodes isoform 2 (also known as ATFa2).
      Source sequence(s)
      AC023509, BP279417, BP312300, BQ184780, DB047160, X52943
      Consensus CDS
      CCDS44906.1
      UniProtKB/Swiss-Prot
      P17544
      Related
      ENSP00000399465.1, ENST00000420353.7
      Conserved Domains (3) summary
      cd12192
      Location:4784
      GCN4_cent; GCN4 central activation domain-like acidic activation domain
      cd14687
      Location:334394
      bZIP_ATF2; Basic leucine zipper (bZIP) domain of Activating Transcription Factor-2 (ATF-2) and similar proteins: a DNA-binding and dimerization domain
      sd00019
      Location:931
      ZF_C2H2; C2H2 Zn finger [structural motif]

    RNA

    1. NR_073163.2 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (6) use an alternate splice site in an internal exon and has an alternate 3' structure, compared to variant 2. This variant is represented as non-coding because the use of the 5'-most supported translational start codon, as used in variant 2, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AC073594, AK298853

    RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20191205

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

    Reference GRCh38.p13 Primary Assembly

    Genomic

    1. NC_000012.12 Reference GRCh38.p13 Primary Assembly

      Range
      53507856..53626415 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_001130059.1: Suppressed sequence

      Description
      NM_001130059.1: This RefSeq was permanently suppressed because currently there is insufficient support for the transcript and the protein.
    Support Center