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

    Gene ID: 11016, updated on 28-Oct-2024

    Summary

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    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. Part of RNA polymerase II transcription regulator complex. Biomarker of colorectal cancer. [provided by Alliance of Genome Resources, Oct 2024]
    Expression
    Ubiquitous expression in lung (RPKM 9.8), fat (RPKM 9.2) and 25 other tissues See more
    Orthologs
    mouse all
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    Genomic context

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    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

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • 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

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    Related articles in PubMed

    1. Isolation and characterization of two novel, closely related ATF cDNA clones from HeLa cells. Gaire M, et al. Nucleic Acids Res, 1990 Jun 25. PMID 1694576, Free PMC Article
    2. Structure and expression of the ATFa gene. Goetz J, et al. J Biol Chem, 1996 Nov 22. PMID 8939888
    3. Cofactor competition between the ligand-bound oestrogen receptor and an intron 1 enhancer leads to oestrogen repression of ERBB2 expression in breast cancer. Newman SP, et al. Oncogene, 2000 Jan 27. PMID 10698518
    4. miRNA-103a-3p Promotes Human Gastric Cancer Cell Proliferation by Targeting and Suppressing ATF7 in vitro. Hu X, et al. Mol Cells, 2018 May 31. PMID 29754469, Free PMC Article
    5. Cdk1-mediated phosphorylation of human ATF7 at Thr-51 and Thr-53 promotes cell-cycle progression into M phase. Hasegawa H, et al. PLoS One, 2014. PMID 25545367, Free PMC Article

    See all (71) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. lncRNA prostate cancer-associated transcript 18 upregulates activating transcription factor 7 to prevent metastasis of triple-negative breast cancer via sponging miR-103a-3p.
      Title: lncRNA prostate cancer-associated transcript 18 upregulates activating transcription factor 7 to prevent metastasis of triple-negative breast cancer via sponging miR-103a-3p.
    2. Results found that ATF7 is upregulated in hepatocellular carcinoma (HCC) tissue. Its expression is regulated by miR-340 which directly binds to the mRNA encoding ATF7. Under HBV infection, miR-340 is downregulated resulting in increasing ATF7 expression, leading to enhanced cell proliferation and inhibition of apoptosis.
      Title: Hepatitis B virus-regulated growth of liver cancer cells occurs through the microRNA-340-5p-activating transcription factor 7-heat shock protein A member 1B axis.
    3. ATF7 is a direct target of miR-103a-3p. In a stomach cancer cohort,miR-103a-3p expression was inversely correlated with ATF7 expression. Silencing ATF7 showed similar cellular and molecular effects as miR-103a-3p overexpression, namely, increased GC cell proliferation, improved CDK2 expression and decreased P27 expression.
      Title: miRNA-103a-3p Promotes Human Gastric Cancer Cell Proliferation by Targeting and Suppressing ATF7 in vitro.
    4. knockdown of the mammalian homologs of PDK1 and ATF7 in HEK293 cells resulted in changes in metallothionein expression, suggesting that this pathway was evolutionarily conserved
      Title: Identification of ATF-7 and the insulin signaling pathway in the regulation of metallothionein in C. elegans suggests roles in aging and reactive oxygen species.
    5. CARMA1- and MyD88-dependent activation of Jun/ATF-type AP-1 complexes is a hallmark of ABC diffuse large B-cell lymphomas.
      Title: CARMA1- and MyD88-dependent activation of Jun/ATF-type AP-1 complexes is a hallmark of ABC diffuse large B-cell lymphomas.
    6. mitotic stabilized ATF7 protein re-localizes onto chromatin at the end of telophase and contributes to induce the cyclin D1 gene expression.
      Title: ATF7 is stabilized during mitosis in a CDK1-dependent manner and contributes to cyclin D1 expression.
    7. It is negatively related between ATF7 expression and pathological stage and positive correlation with OS and PFS in CRC. ATF7 expression is a favorable factor for survival of patients with CRC.
      Title: Expression of activating transcription factor 7 is correlated with prognosis of colorectal cancer.
    8. These results suggest that the Cdk1-mediated phosphorylation of ATF7 facilitates G2/M progression, at least in part, by enabling Aurora signaling.
      Title: Cdk1-mediated phosphorylation of human ATF7 at Thr-51 and Thr-53 promotes cell-cycle progression into M phase.
    9. ATF7 interacts with TAF12 and contributes to the hypersensitivity of OCL precursors to 1,25-(OH)D in PD.
      Title: Role of ATF7-TAF12 interactions in the vitamin D response hypersensitivity of osteoclast precursors in Paget's disease.
    10. Data show that ATF7-4 is an important cytoplasmic negative regulator of ATF7 and ATF2 transcription factors.
      Title: A cytoplasmic negative regulator isoform of ATF7 impairs ATF7 and ATF2 phosphorylation and transcriptional activity.
    Submit: New GeneRIF Correction See all GeneRIFs (11)

    Phenotypes

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    Find tests for this gene in the NIH Genetic Testing Registry (GTR)

    Review eQTL and phenotype association data in this region using PheGenI

    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

    Variation

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    See variants in ClinVar

    See studies and variants in dbVar

    See Variation Viewer (GRCh37.p13)

    See Variation Viewer (GRCh38)

    Genotypes

    Pathways from PubChem

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    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Readthrough ATF7-NPFF

    Readthrough gene: ATF7-NPFF, Included gene: NPFF

    Homology

    Clone Names

    • MGC57182

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables DNA-binding transcription factor activity NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    enables DNA-binding transcription factor activity, RNA polymerase II-specific IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables DNA-binding transcription factor activity, RNA polymerase II-specific ISA
    Inferred from Sequence Alignment
    more info
    		  
    enables DNA-binding transcription repressor activity, RNA polymerase II-specific IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables cAMP response element binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables enzyme binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables mitogen-activated protein kinase binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables sequence-specific double-stranded DNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables transcription cis-regulatory region binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables transcription coactivator binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in negative regulation of transcription by RNA polymerase II IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in positive regulation of transcription by RNA polymerase II IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in regulation of DNA-templated transcription IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in regulation of transcription by RNA polymerase II NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    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

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

    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_001130060.2 → NP_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:47 → 84
      GCN4_cent; GCN4 central activation domain-like acidic activation domain
      cd14687
      Location:313 → 373
      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:9 → 31
      ZF_C2H2; C2H2 Zn finger [structural motif]

    2. NM_001206682.2 → NP_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:47 → 84
      GCN4_cent; GCN4 central activation domain-like acidic activation domain

    3. NM_001206683.1 → NP_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:47 → 84
      GCN4_cent; GCN4 central activation domain-like acidic activation domain

    4. NM_001366555.2 → NP_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:47 → 84
      GCN4_cent; GCN4 central activation domain-like acidic activation domain
      cd14687
      Location:345 → 405
      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:9 → 31
      ZF_C2H2; C2H2 Zn finger [structural motif]

    5. NM_001366556.2 → NP_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:47 → 84
      GCN4_cent; GCN4 central activation domain-like acidic activation domain
      cd14687
      Location:334 → 394
      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:9 → 31
      ZF_C2H2; C2H2 Zn finger [structural motif]

    6. NM_001366558.2 → NP_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:47 → 84
      GCN4_cent; GCN4 central activation domain-like acidic activation domain
      cd14687
      Location:334 → 394
      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:9 → 31
      ZF_C2H2; C2H2 Zn finger [structural motif]

    7. NM_001366561.2 → NP_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:279 → 339
      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_001366562.2 → NP_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:47 → 84
      GCN4_cent; GCN4 central activation domain-like acidic activation domain

    9. NM_001366563.2 → NP_001353492.1  cyclic AMP-dependent transcription factor ATF-7 isoform 9

      Status: VALIDATED

      Source sequence(s)
      AC023509, AC073594
      Conserved Domains (1) summary
      cd12192
      Location:18 → 54
      GCN4_cent; GCN4 central activation domain-like acidic activation domain

    10. NM_006856.3 → NP_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:47 → 84
      GCN4_cent; GCN4 central activation domain-like acidic activation domain
      cd14687
      Location:334 → 394
      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:9 → 31
      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.
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    P17544.3 GenPept UniProtKB/Swiss-Prot:P17544

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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