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

Gene ID: 11016, updated on 19-Sep-2024

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; AllianceGenome:HGNC:792
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
Summary
Enables several functions, including DNA-binding transcription repressor activity, RNA polymerase II-specific; mitogen-activated protein kinase binding activity; and transcription coactivator binding activity. Involved in negative regulation of transcription by RNA polymerase II and positive regulation of transcription by RNA polymerase II. Located in nucleoplasm. Biomarker of colorectal cancer. [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in lung (RPKM 9.8), fat (RPKM 9.2) and 25 other tissues See more
Orthologs
NEW
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Genomic context

See ATF7 in Genome Data Viewer
Location:
12q13.13
Exon count:
14
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 12 NC_000012.12 (53507856..53626382, complement)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 12 NC_060936.1 (53473861..53592424, complement)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 12 NC_000012.11 (53901640..54020166, complement)

Chromosome 12 - NC_000012.12Genomic Context describing neighboring genes Neighboring gene mitogen-activated protein kinase kinase kinase 12 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6423 Neighboring gene Sharpr-MPRA regulatory region 3466 Neighboring gene ReSE screen-validated silencer GRCh37_chr12:53902821-53903053 Neighboring gene ATF7-NPFF readthrough Neighboring gene uncharacterized LOC100652999 Neighboring gene TARBP2 subunit of RISC loading complex Neighboring gene ReSE screen-validated silencer GRCh37_chr12:53909665-53909906 Neighboring gene H3K27ac hESC enhancer GRCh37_chr12:53910873-53911372 Neighboring gene neuropeptide FF-amide peptide precursor Neighboring gene uncharacterized LOC124902937 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr12:53962840-53963409 Neighboring gene zinc finger protein 337 pseudogene Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4516 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6424 Neighboring gene MPRA-validated peak1736 silencer Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6425 Neighboring gene uncharacterized LOC124902938 Neighboring gene ribosomal protein L31 pseudogene 51

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues 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

EBI GWAS Catalog

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

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Readthrough ATF7-NPFF

Readthrough gene: ATF7-NPFF, Included gene: NPFF

Clone Names

  • MGC57182

Gene Ontology Provided by GOA

Component Evidence Code Pubs
part_of RNA polymerase II transcription regulator complex IPI
Inferred from Physical Interaction
more info
PubMed 
located_in chromatin ISA
Inferred from Sequence Alignment
more info
 
located_in chromosome, telomeric region IEA
Inferred from Electronic Annotation
more info
 
located_in cytoplasm IEA
Inferred from Electronic Annotation
more info
 
located_in nucleoplasm IDA
Inferred from Direct Assay
more info
PubMed 
located_in 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)

NEW Try the new Transcript table

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/TrEMBL
    B2R8U0
    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_001206682.2NP_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
    Consensus CDS
    CCDS44905.1
    UniProtKB/TrEMBL
    B2R8U0
    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
    Consensus CDS
    CCDS44906.1
    UniProtKB/Swiss-Prot
    A5D6Y4, B2RMP1, B4DQL4, P17544, Q13814, Q8IVR8, Q9UD83
    UniProtKB/TrEMBL
    B2R8U0
    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
    Consensus CDS
    CCDS44906.1
    UniProtKB/Swiss-Prot
    A5D6Y4, B2RMP1, B4DQL4, P17544, Q13814, Q8IVR8, Q9UD83
    UniProtKB/TrEMBL
    B2R8U0
    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
    UniProtKB/TrEMBL
    B2R8U0
    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_001366562.2NP_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
    Consensus CDS
    CCDS58238.1
    Conserved Domains (1) summary
    cd12192
    Location:4784
    GCN4_cent; GCN4 central activation domain-like acidic activation domain
  9. NM_001366563.2NP_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
    A5D6Y4, B2RMP1, B4DQL4, P17544, Q13814, Q8IVR8, Q9UD83
    UniProtKB/TrEMBL
    B2R8U0
    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: GCF_000001405.40-RS_2024_08

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000012.12 Reference GRCh38.p14 Primary Assembly

    Range
    53507856..53626382 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060936.1 Alternate T2T-CHM13v2.0

    Range
    53473861..53592424 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.