U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    ZFAT zinc finger and AT-hook domain containing [ Homo sapiens (human) ]

    Gene ID: 57623, updated on 2-Nov-2024

    Summary

    Official Symbol
    ZFATprovided by HGNC
    Official Full Name
    zinc finger and AT-hook domain containingprovided by HGNC
    Primary source
    HGNC:HGNC:19899
    See related
    Ensembl:ENSG00000066827 MIM:610931; AllianceGenome:HGNC:19899
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    AITD3; ZFAT1; ZNF406
    Summary
    This gene encodes a protein that likely binds DNA and functions as a transcriptional regulator involved in apoptosis and cell survival. This gene resides in a susceptibility locus for autoimmune thyroid disease (AITD) on chromosome 8q24. Alternative splicing results in multiple transcript variants encoding distinct isoforms. [provided by RefSeq, Nov 2009]
    Expression
    Broad expression in placenta (RPKM 4.4), kidney (RPKM 1.1) and 17 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See ZFAT in Genome Data Viewer
    Location:
    8q24.22
    Exon count:
    26
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 8 NC_000008.11 (134477788..134832339, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 8 NC_060932.1 (135595711..135950237, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 8 NC_000008.10 (135490031..135725274, complement)

    Chromosome 8 - NC_000008.11Genomic Context describing neighboring genes Neighboring gene MIA SH3 domain ER export factor 2 pseudogene Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:135180517-135181018 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:135181019-135181518 Neighboring gene uncharacterized LOC124902070 Neighboring gene Sharpr-MPRA regulatory region 13712 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19567 Neighboring gene MPRA-validated peak7183 silencer Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:135469463-135469963 Neighboring gene NANOG hESC enhancer GRCh37_chr8:135512751-135513262 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:135534207-135534774 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28008 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28009 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28010 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28011 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28012 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28013 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr8:135593335-135594534 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28014 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28015 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28016 Neighboring gene ZFAT antisense RNA 1 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28017 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28018 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:135697807-135698308 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:135698309-135698808 Neighboring gene ReSE screen-validated silencer GRCh37_chr8:135698888-135699054 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28019 Neighboring gene NANOG hESC enhancer GRCh37_chr8:135721671-135722354 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28020 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28021 Neighboring gene uncharacterized LOC124902072 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28022 Neighboring gene uncharacterized LOC124902071 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19568 Neighboring gene uncharacterized LOC101927845 Neighboring gene non-protein coding RNA 250 Neighboring gene microRNA 30b Neighboring gene microRNA 30d

    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

    Associated conditions

    Description Tests
    Autoimmune thyroid disease, susceptibility to, 3
    MedGen: C1842444 OMIM: 608175 GeneReviews: Not available
    Compare labs

    EBI GWAS Catalog

    Description
    Common genetic variants associated with cognitive performance identified using the proxy-phenotype method.
    EBI GWAS Catalog
    Genome-wide association for abdominal subcutaneous and visceral adipose reveals a novel locus for visceral fat in women.
    EBI GWAS Catalog
    Genome-wide association study of smoking behaviours among Bangladeshi adults.
    EBI GWAS Catalog
    Hundreds of variants clustered in genomic loci and biological pathways affect human height.
    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
    Two-marker association tests yield new disease associations for coronary artery disease and hypertension.
    EBI GWAS Catalog

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Clone Names

    • KIAA1485, MGC126815, MGC126817

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables DNA-binding transcription activator activity, RNA polymerase II-specific IEA
    Inferred from Electronic Annotation
    more info
     
    enables DNA-binding transcription factor activity, RNA polymerase II-specific IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    Process Evidence Code Pubs
    involved_in hematopoietic progenitor cell differentiation IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in positive regulation of transcription by RNA polymerase II IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in regulation of DNA-templated transcription IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    Component Evidence Code Pubs
    located_in cytosol IEA
    Inferred from Electronic Annotation
    more info
     
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
     

    General protein information

    Preferred Names
    zinc finger protein ZFAT
    Names
    zinc finger gene in autoimmune thyroid disease
    zinc finger protein 406
    zinc-finger gene in AITD susceptibility region

    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.

    Genomic

    1. NG_016356.3 RefSeqGene

      Range
      124308..359551
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001029939.4NP_001025110.2  zinc finger protein ZFAT isoform 2

      See identical proteins and their annotated locations for NP_001025110.2

      Status: REVIEWED

      Description
      Transcript Variant: This variant (3) differs in the 5' UTR, lacks a portion of the 5' coding region, and uses a downstream start codon, compared to variant 1. The resulting isoform (2) is shorter at the N-terminus, compared to isoform 1. Variants 2, 3, and 6 all encode the same isoform (2).
      Source sequence(s)
      AB167740, AC015599, AC135075, BC098405, BM685256
      Consensus CDS
      CCDS43768.2
      UniProtKB/TrEMBL
      B7Z6H1
      Related
      ENSP00000427831.1, ENST00000520727.5
      Conserved Domains (4) summary
      COG5048
      Location:255414
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:261281
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:259281
      zf-C2H2; Zinc finger, C2H2 type
      pfam13465
      Location:273295
      zf-H2C2_2; Zinc-finger double domain
    2. NM_001167583.3NP_001161055.1  zinc finger protein ZFAT isoform 2

      See identical proteins and their annotated locations for NP_001161055.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR, lacks a portion of the 5' coding region, and uses a downstream start codon, compared to variant 1. The resulting isoform (2) is shorter at the N-terminus, compared to isoform 1. Variants 2, 3, and 6 all encode the same isoform (2).
      Source sequence(s)
      AC015599, AC135075, AK300324, BC098405, BM685256
      Consensus CDS
      CCDS43768.2
      UniProtKB/TrEMBL
      B7Z6H1
      Related
      ENSP00000428483.1, ENST00000520214.5
      Conserved Domains (4) summary
      COG5048
      Location:255414
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:261281
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:259281
      zf-C2H2; Zinc finger, C2H2 type
      pfam13465
      Location:273295
      zf-H2C2_2; Zinc-finger double domain
    3. NM_001174157.2NP_001167628.1  zinc finger protein ZFAT isoform 3

      Status: REVIEWED

      Description
      Transcript Variant: This variant (4) lacks an alternate in-frame exon in the central coding region, compared to variant 1, resulting in an isoform (3) that is shorter than isoform 1.
      Source sequence(s)
      AC015599, AC087045, AK300324, BC143519, BM685256, DC333809
      Consensus CDS
      CCDS55276.1
      UniProtKB/TrEMBL
      B7Z6H1
      Related
      ENSP00000429091.1, ENST00000523399.5
      Conserved Domains (4) summary
      COG5048
      Location:205364
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:211231
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:209231
      zf-C2H2; Zinc finger, C2H2 type
      pfam13465
      Location:223245
      zf-H2C2_2; Zinc-finger double domain
    4. NM_001174158.2NP_001167629.1  zinc finger protein ZFAT isoform 4

      Status: REVIEWED

      Description
      Transcript Variant: This variant (5) differs in the 5' UTR, lacks a portion of the 5' coding region, uses a downstream start codon, and lacks an in-frame segment in the 3' coding region, compared to variant 1. The resulting isoform (4) is shorter than isoform 1.
      Source sequence(s)
      AC015599, AC135075, BC012989, BC098405
      Consensus CDS
      CCDS55275.1
      UniProtKB/TrEMBL
      E9PBN4, Q6PJQ2
      Related
      ENSP00000427879.1, ENST00000520356.5
      Conserved Domains (3) summary
      sd00017
      Location:261281
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:259281
      zf-C2H2; Zinc finger, C2H2 type
      pfam13465
      Location:273295
      zf-H2C2_2; Zinc-finger double domain
    5. NM_001289394.2NP_001276323.1  zinc finger protein ZFAT isoform 2

      See identical proteins and their annotated locations for NP_001276323.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (6) differs in the 5' UTR, lacks a portion of the 5' coding region, and initiates translation at a downstream start codon, compared to variant 1. This results in an isoform (2) which has a shorter N-terminus, compared to isoform 1. Variants 2, 3, and 6 all encode the same isoform (2).
      Source sequence(s)
      AB167739, AK300324, AL832066, BM685256
      Consensus CDS
      CCDS43768.2
      UniProtKB/TrEMBL
      B7Z6H1
      Conserved Domains (4) summary
      COG5048
      Location:255414
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:261281
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:259281
      zf-C2H2; Zinc finger, C2H2 type
      pfam13465
      Location:273295
      zf-H2C2_2; Zinc-finger double domain
    6. NM_020863.4NP_065914.2  zinc finger protein ZFAT isoform 1

      See identical proteins and their annotated locations for NP_065914.2

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) encodes the longest isoform (1).
      Source sequence(s)
      AB040918, AC135075, AL832066, BC046180, BC101768
      Consensus CDS
      CCDS47924.1
      UniProtKB/Swiss-Prot
      B7ZL15, E9PER3, Q3MIM5, Q6PJ01, Q75PJ6, Q75PJ7, Q75PJ9, Q86X64, Q9P243
      UniProtKB/TrEMBL
      B7Z6H1
      Related
      ENSP00000367069.3, ENST00000377838.8
      Conserved Domains (4) summary
      COG5048
      Location:267426
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:273293
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:271293
      zf-C2H2; Zinc finger, C2H2 type
      pfam13465
      Location:285307
      zf-H2C2_2; Zinc-finger double domain

    RNA

    1. NR_110323.2 RNA Sequence

      Status: REVIEWED

      Description
      Transcript Variant: This variant (7) contains an alternate internal exon structure, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AB040918, AK300324, AL832066, BC025423, BC101766, BM685256
      Related
      ENST00000523243.5

    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_000008.11 Reference GRCh38.p14 Primary Assembly

      Range
      134477788..134832339 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_047422062.1XP_047278018.1  zinc finger protein ZFAT isoform X2

      UniProtKB/Swiss-Prot
      B7ZL15, E9PER3, Q3MIM5, Q6PJ01, Q75PJ6, Q75PJ7, Q75PJ9, Q86X64, Q9P243
    2. XM_047422063.1XP_047278019.1  zinc finger protein ZFAT isoform X3

    3. XM_011517204.3XP_011515506.1  zinc finger protein ZFAT isoform X4

      UniProtKB/TrEMBL
      B7Z6H1
      Conserved Domains (4) summary
      COG5048
      Location:205364
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:211231
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:209231
      zf-C2H2; Zinc finger, C2H2 type
      pfam13465
      Location:223245
      zf-H2C2_2; Zinc-finger double domain
    4. XM_011517206.2XP_011515508.1  zinc finger protein ZFAT isoform X5

      UniProtKB/TrEMBL
      F8W7M8, Q4KMQ4
      Conserved Domains (3) summary
      sd00017
      Location:261281
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:259281
      zf-C2H2; Zinc finger, C2H2 type
      pfam13465
      Location:273295
      zf-H2C2_2; Zinc-finger double domain
    5. XM_017013716.2XP_016869205.1  zinc finger protein ZFAT isoform X1

      UniProtKB/TrEMBL
      B7Z6H1

    RNA

    1. XR_007060749.1 RNA Sequence

    2. XR_007060750.1 RNA Sequence

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060932.1 Alternate T2T-CHM13v2.0

      Range
      135595711..135950237 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054360941.1XP_054216916.1  zinc finger protein ZFAT isoform X2

      UniProtKB/Swiss-Prot
      B7ZL15, E9PER3, Q3MIM5, Q6PJ01, Q75PJ6, Q75PJ7, Q75PJ9, Q86X64, Q9P243
    2. XM_054360940.1XP_054216915.1  zinc finger protein ZFAT isoform X2

      UniProtKB/Swiss-Prot
      B7ZL15, E9PER3, Q3MIM5, Q6PJ01, Q75PJ6, Q75PJ7, Q75PJ9, Q86X64, Q9P243
    3. XM_054360942.1XP_054216917.1  zinc finger protein ZFAT isoform X3

    4. XM_054360943.1XP_054216918.1  zinc finger protein ZFAT isoform X4

    5. XM_054360944.1XP_054216919.1  zinc finger protein ZFAT isoform X5

      UniProtKB/TrEMBL
      F8W7M8
    6. XM_054360939.1XP_054216914.1  zinc finger protein ZFAT isoform X1

    RNA

    1. XR_008487868.1 RNA Sequence