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

Gene ID: 11016, updated on 1-Jun-2020

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
109.20200522 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 
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.

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.
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