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ZMAT1 zinc finger matrin-type 1 [ Homo sapiens (human) ]

Gene ID: 84460, updated on 2-Nov-2024

Summary

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Official Symbol
ZMAT1provided by HGNC
Official Full Name
zinc finger matrin-type 1provided by HGNC
Primary source
HGNC:HGNC:29377
See related
Ensembl:ENSG00000166432 MIM:301007; AllianceGenome:HGNC:29377
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
Summary
This gene encodes a protein containing Cys2-His2 (C2H2)-type zinc fingers, which are similar to those found in the nuclear matrix protein matrin 3. Alternatively spliced transcript variants have been found for this gene. [provided by RefSeq, Jan 2012]
Expression
Ubiquitous expression in thyroid (RPKM 9.8), ovary (RPKM 6.5) and 25 other tissues See more
Orthologs
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Genomic context

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See ZMAT1 in Genome Data Viewer
Location:
Xq22.1
Exon count:
12
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) X NC_000023.11 (101882290..101932027, complement)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) X NC_060947.1 (100326914..100376656, complement)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) X NC_000023.10 (101137262..101187000, complement)

Chromosome X - NC_000023.11Genomic Context describing neighboring genes Neighboring gene glycerol kinase 4 pseudogene Neighboring gene nuclear RNA export factor 5 Neighboring gene H3K4me1 hESC enhancer GRCh37_chrX:101160927-101161428 Neighboring gene RNA, U6 small nuclear 345, pseudogene Neighboring gene H3K27ac hESC enhancer GRCh37_chrX:101186779-101187279 Neighboring gene H3K4me1 hESC enhancer GRCh37_chrX:101254554-101255054 Neighboring gene H3K4me1 hESC enhancer GRCh37_chrX:101255055-101255555 Neighboring gene H2B histone pseudogene 8 Neighboring gene C3orf49 pseudogene 1

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. Perspectives on zinc finger protein function and evolution--an update. Pieler T, et al. Mol Biol Rep, 1994 Jul. PMID 7531280
  2. ZMAT1 acts as a tumor suppressor in pancreatic ductal adenocarcinoma by inducing SIRT3/p53 signaling pathway. Ma Z, et al. J Exp Clin Cancer Res, 2022 Apr 7. PMID 35392973, Free PMC Article
  3. Downregulation of long noncoding RNA ZMAT1 transcript variant 2 predicts a poor prognosis in patients with gastric cancer. Lai Y, et al. Int J Clin Exp Pathol, 2015. PMID 26191264, Free PMC Article
  4. Keep your fingers off my DNA: protein-protein interactions mediated by C2H2 zinc finger domains. Brayer KJ, et al. Cell Biochem Biophys, 2008. PMID 18253864
  5. Zinc finger proteins: getting a grip on RNA. Brown RS. Curr Opin Struct Biol, 2005 Feb. PMID 15718139

See all (22) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. ZMAT1 acts as a tumor suppressor in pancreatic ductal adenocarcinoma by inducing SIRT3/p53 signaling pathway.
    Title: ZMAT1 acts as a tumor suppressor in pancreatic ductal adenocarcinoma by inducing SIRT3/p53 signaling pathway.
  2. Suggest that ZMAT1 transcript variant 2 is a potential diagnostic factor in patients with gastric cancer.
    Title: Downregulation of long noncoding RNA ZMAT1 transcript variant 2 predicts a poor prognosis in patients with gastric cancer.
Submit: New GeneRIF Correction

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

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Clone Names

  • KIAA1789, MGC176597, MGC176728

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables DNA binding IEA
Inferred from Electronic Annotation
more info
  
enables zinc ion binding IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
located_in nucleus IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
zinc finger matrin-type protein 1

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.

Genomic

  1. NG_016330.2 RefSeqGene

    Range
    4738..54475
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001011657.4 → NP_001011657.2  zinc finger matrin-type protein 1 isoform 1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) encodes the longer isoform (1).
    Source sequence(s)
    AA459272, AK296520, BC045706, BC152470, DA824319, Z68868, Z69304
    Consensus CDS
    CCDS35348.1
    UniProtKB/Swiss-Prot
    A0A494C0A7, Q5H9K5, Q8NDS3, Q96JN6
    Related
    ENSP00000361868.3, ENST00000372782.4
    Conserved Domains (2) summary
    smart00451
    Location:118 → 152
    ZnF_U1; U1-like zinc finger
    pfam08576
    Location:532 → 584
    DUF1764; Eukaryotic protein of unknown function (DUF1764)

  2. NM_001282400.2 → NP_001269329.1  zinc finger matrin-type protein 1 isoform 4

    See identical proteins and their annotated locations for NP_001269329.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) uses an alternate 5' exon structure and thus differs in the 5' UTR and 5' coding region compared to variant 1. These differences cause translation initiation at a downstream AUG and result in an isoform (4) with a shorter N-terminus, compared to isoform 1. Both variants 2 and 4 encode the same isoform (4).
    Source sequence(s)
    AA459272, AK094141, AL831883, Z68868
    UniProtKB/TrEMBL
    A7MD47

  3. NM_001282401.2 → NP_001269330.1  zinc finger matrin-type protein 1 isoform 4

    See identical proteins and their annotated locations for NP_001269330.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4) uses an alternate 5' exon structure and thus differs in the 5' UTR and 5' coding region compared to variant 1. These differences cause translation initiation at a downstream AUG and result in an isoform (4) with a shorter N-terminus, compared to isoform 1. Both variants 2 and 4 encode the same isoform (4).
    Source sequence(s)
    AA459272, AK296520, AL831883
    UniProtKB/TrEMBL
    A7MD47
    Related
    ENST00000458570.5
    Conserved Domains (1) summary
    pfam08576
    Location:361 → 413
    DUF1764; Eukaryotic protein of unknown function (DUF1764)

  4. NM_001394560.1 → NP_001381489.1  zinc finger matrin-type protein 1 isoform 5

    Status: REVIEWED

    Source sequence(s)
    KF459260, Z68326, Z68868, Z69304
    Consensus CDS
    CCDS94643.1
    Related
    ENSP00000498446.1, ENST00000651725.2
    Conserved Domains (1) summary
    smart00451
    Location:175 → 209
    ZnF_U1; U1-like zinc finger

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_000023.11 Reference GRCh38.p14 Primary Assembly

    Range
    101882290..101932027 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_005262213.5 → XP_005262270.2  zinc finger matrin-type protein 1 isoform X2

    Conserved Domains (2) summary
    smart00451
    Location:175 → 209
    ZnF_U1; U1-like zinc finger
    pfam08576
    Location:611 → 663
    DUF1764; Eukaryotic protein of unknown function (DUF1764)

  2. XM_005262212.5 → XP_005262269.2  zinc finger matrin-type protein 1 isoform X1

    Conserved Domains (2) summary
    smart00451
    Location:175 → 209
    ZnF_U1; U1-like zinc finger
    pfam08576
    Location:612 → 664
    DUF1764; Eukaryotic protein of unknown function (DUF1764)

  3. XM_017029903.2 → XP_016885392.1  zinc finger matrin-type protein 1 isoform X3

  4. XM_005262216.5 → XP_005262273.2  zinc finger matrin-type protein 1 isoform X4

    Conserved Domains (2) summary
    smart00451
    Location:55 → 89
    ZnF_U1; U1-like zinc finger
    pfam08576
    Location:492 → 544
    DUF1764; Eukaryotic protein of unknown function (DUF1764)

  5. XM_047442574.1 → XP_047298530.1  zinc finger matrin-type protein 1 isoform X5

    UniProtKB/TrEMBL
    A7MD47

  6. XM_006724711.4 → XP_006724774.1  zinc finger matrin-type protein 1 isoform X5

    See identical proteins and their annotated locations for XP_006724774.1

    UniProtKB/TrEMBL
    A7MD47
    Conserved Domains (1) summary
    pfam08576
    Location:361 → 413
    DUF1764; Eukaryotic protein of unknown function (DUF1764)

  7. XM_047442576.1 → XP_047298532.1  zinc finger matrin-type protein 1 isoform X5

    UniProtKB/TrEMBL
    A7MD47

  8. XM_047442575.1 → XP_047298531.1  zinc finger matrin-type protein 1 isoform X5

    UniProtKB/TrEMBL
    A7MD47

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060947.1 Alternate T2T-CHM13v2.0

    Range
    100326914..100376656 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054327978.1 → XP_054183953.1  zinc finger matrin-type protein 1 isoform X8

  2. XM_054327977.1 → XP_054183952.1  zinc finger matrin-type protein 1 isoform X7

  3. XM_054327976.1 → XP_054183951.1  zinc finger matrin-type protein 1 isoform X6

  4. XM_054327980.1 → XP_054183955.1  zinc finger matrin-type protein 1 isoform X2

  5. XM_054327979.1 → XP_054183954.1  zinc finger matrin-type protein 1 isoform X1

  6. XM_054327981.1 → XP_054183956.1  zinc finger matrin-type protein 1 isoform X5

    UniProtKB/TrEMBL
    A7MD47

  7. XM_054327984.1 → XP_054183959.1  zinc finger matrin-type protein 1 isoform X5

    UniProtKB/TrEMBL
    A7MD47

  8. XM_054327983.1 → XP_054183958.1  zinc finger matrin-type protein 1 isoform X5

    UniProtKB/TrEMBL
    A7MD47

  9. XM_054327982.1 → XP_054183957.1  zinc finger matrin-type protein 1 isoform X5

    UniProtKB/TrEMBL
    A7MD47

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NR_036431.1: Suppressed sequence

    Description
    NR_036431.1: This RefSeq was permanently suppressed because currently there is insufficient support for the transcript, which appears to retain intronic sequence at its 5' end.

  2. NR_046008.1: Suppressed sequence

    Description
    NR_046008.1: This RefSeq was permanently suppressed because it is now thought that this gene does encode a protein.
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q5H9K5.2 GenPept UniProtKB/Swiss-Prot:Q5H9K5

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