Human Gene MTA1 (ENST00000331320.12_8) from GENCODE V47lift37
  Description: metastasis associated 1, transcript variant 1 (from RefSeq NM_004689.4)
Gencode Transcript: ENST00000331320.12_8
Gencode Gene: ENSG00000182979.18_15
Transcript (Including UTRs)
   Position: hg19 chr14:105,886,164-105,937,066 Size: 50,903 Total Exon Count: 21 Strand: +
Coding Region
   Position: hg19 chr14:105,886,373-105,936,552 Size: 50,180 Coding Exon Count: 21 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
GO AnnotationsmRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr14:105,886,164-105,937,066)mRNA (may differ from genome)Protein (715 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGeneCardsHGNC
MalacardsMGIOMIMPubMedReactomeUniProtKB
WikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: MTA1_HUMAN
DESCRIPTION: RecName: Full=Metastasis-associated protein MTA1;
FUNCTION: May be involved in the regulation of gene expression by covalent modification of histone proteins. Isoform Long is a corepressor of estrogen receptor (ER). Isoform Short binds to ER and sequesters it in the cytoplasm and enhances non-genomic responses of ER.
SUBUNIT: Component of the nucleosome-remodeling and histone- deacetylase multiprotein complex (NuRD). Interacts with HDAC1 and ITGB3BP/CENPR. Binds to CSNK1G2 in the cytoplasm.
SUBCELLULAR LOCATION: Isoform Short: Cytoplasm.
SUBCELLULAR LOCATION: Isoform Long: Nucleus.
TISSUE SPECIFICITY: Widely expressed. High expression in brain, ovaries, adrenal glands and virgin mammary glands. Higher in tumors than in adjacent normal tissue from the same individual.
DEVELOPMENTAL STAGE: Highly expressed in metastatic cells.
DOMAIN: Isoform Short contains a Leu-Arg-Ile-Leu-Leu motif (ER binding motif).
PTM: Phosphorylation by CSNK1G2/CK1 triggered by estrogen enhances corepression of estrogen receptor (ER).
SIMILARITY: Contains 1 BAH domain.
SIMILARITY: Contains 1 ELM2 domain.
SIMILARITY: Contains 1 GATA-type zinc finger.
SIMILARITY: Contains 1 SANT domain.
WEB RESOURCE: Name=Atlas of Genetics and Cytogenetics in Oncology and Haematology; URL="http://atlasgeneticsoncology.org/Genes/MTA1ID41443ch14q32.html";

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  MalaCards Disease Associations
  MalaCards Gene Search: MTA1
Diseases sorted by gene-association score: esophageal cancer (5), tonsil cancer (3), breast cancer (3), ovarian cancer, somatic (3), colorectal cancer (2), microphthalmia, isolated 1 (1)

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 45.26 RPKM in Testis
Total median expression: 1303.83 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -113.50209-0.543 Picture PostScript Text
3' UTR -171.70514-0.334 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR001025 - BAH_dom
IPR000949 - ELM2_dom
IPR009057 - Homeodomain-like
IPR001005 - SANT/Myb
IPR017884 - SANT_dom
IPR000679 - Znf_GATA

Pfam Domains:
PF00249 - Myb-like DNA-binding domain
PF00320 - GATA zinc finger
PF01426 - BAH domain
PF01448 - ELM2 domain
PF17226 - MTA R1 domain

SCOP Domains:
46689 - Homeodomain-like
82061 - BAH domain
57716 - Glucocorticoid receptor-like (DNA-binding domain)

ModBase Predicted Comparative 3D Structure on Q13330
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The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
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-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0000981 RNA polymerase II transcription factor activity, sequence-specific DNA binding
GO:0001046 core promoter sequence-specific DNA binding
GO:0001047 core promoter binding
GO:0001103 RNA polymerase II repressing transcription factor binding
GO:0003677 DNA binding
GO:0003682 chromatin binding
GO:0003700 transcription factor activity, sequence-specific DNA binding
GO:0003713 transcription coactivator activity
GO:0003714 transcription corepressor activity
GO:0004407 histone deacetylase activity
GO:0005515 protein binding
GO:0008270 zinc ion binding
GO:0043565 sequence-specific DNA binding
GO:0046872 metal ion binding

Biological Process:
GO:0006302 double-strand break repair
GO:0006351 transcription, DNA-templated
GO:0006355 regulation of transcription, DNA-templated
GO:0006357 regulation of transcription from RNA polymerase II promoter
GO:0007165 signal transduction
GO:0010212 response to ionizing radiation
GO:0016575 histone deacetylation
GO:0032922 circadian regulation of gene expression
GO:0040029 regulation of gene expression, epigenetic
GO:0043153 entrainment of circadian clock by photoperiod
GO:0043161 proteasome-mediated ubiquitin-dependent protein catabolic process
GO:0045475 locomotor rhythm
GO:0048511 rhythmic process
GO:1902499 positive regulation of protein autoubiquitination
GO:1903507 negative regulation of nucleic acid-templated transcription

Cellular Component:
GO:0005634 nucleus
GO:0005635 nuclear envelope
GO:0005654 nucleoplasm
GO:0005737 cytoplasm
GO:0005829 cytosol
GO:0005856 cytoskeleton
GO:0005874 microtubule
GO:0043231 intracellular membrane-bounded organelle


-  Descriptions from all associated GenBank mRNAs
  BC142941 - Homo sapiens metastasis associated 1, mRNA (cDNA clone MGC:166982 IMAGE:8860315), complete cds.
U35113 - Human metastasis-associated mta1 mRNA, complete cds.
AF508978 - Homo sapiens MTA1S mRNA, complete cds; alternatively spliced.
AB590461 - Synthetic construct DNA, clone: pFN21AE1183, Homo sapiens MTA1 gene for metastasis associated 1, without stop codon, in Flexi system.
BX248776 - human full-length cDNA 5-PRIME end of clone CS0DK005YC03 of HeLa cells of Homo sapiens (human).
BX248755 - human full-length cDNA 5-PRIME end of clone CS0DF014YL24 of Fetal brain of Homo sapiens (human).
JC506661 - Sequence 29 from Patent EP2733220.
JC737773 - Sequence 29 from Patent WO2014075939.
JC506666 - Sequence 34 from Patent EP2733220.
JC737778 - Sequence 34 from Patent WO2014075939.
JC506674 - Sequence 42 from Patent EP2733220.
JC737786 - Sequence 42 from Patent WO2014075939.
JC506688 - Sequence 56 from Patent EP2733220.
JC737800 - Sequence 56 from Patent WO2014075939.
JD032616 - Sequence 13640 from Patent EP1572962.
AB209348 - Homo sapiens mRNA for metastasis associated protein variant protein.
BC006177 - Homo sapiens metastasis associated 1, mRNA (cDNA clone IMAGE:4054392), complete cds.
BC009443 - Homo sapiens metastasis associated 1, mRNA (cDNA clone IMAGE:3509814), partial cds.
KJ901940 - Synthetic construct Homo sapiens clone ccsbBroadEn_11334 MTA1 gene, encodes complete protein.
DQ577848 - Homo sapiens piRNA piR-45960, complete sequence.
JD327907 - Sequence 308931 from Patent EP1572962.
JD561090 - Sequence 542114 from Patent EP1572962.
JD562285 - Sequence 543309 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  BioCarta from NCI Cancer Genome Anatomy Project
h_mta3Pathway - Downregulated of MTA-3 in ER-negative Breast Tumors

Reactome (by CSHL, EBI, and GO)

Protein Q13330 (Reactome details) participates in the following event(s):

R-HSA-3465545 PIAS1,3,4 SUMOylate MTA1 with SUMO2,3
R-HSA-427404 Recruitment of ERCC6 (CSB), EHMT2 (G9a), and NuRD to the promoter of rRNA gene
R-HSA-8943780 SALL4 recruits NuRD to PTEN gene
R-HSA-427336 TTF1:rRNA promoter:ERCC6:EHMT2 complex dimethylates histone H3 at lysine-9.
R-HSA-3769447 HDAC1/2 containing-complexes deacetylate histones
R-HSA-3232118 SUMOylation of transcription factors
R-HSA-3108232 SUMO E3 ligases SUMOylate target proteins
R-HSA-2990846 SUMOylation
R-HSA-427389 ERCC6 (CSB) and EHMT2 (G9a) positively regulate rRNA expression
R-HSA-8943724 Regulation of PTEN gene transcription
R-HSA-597592 Post-translational protein modification
R-HSA-5250913 Positive epigenetic regulation of rRNA expression
R-HSA-6807070 PTEN Regulation
R-HSA-392499 Metabolism of proteins
R-HSA-3214815 HDACs deacetylate histones
R-HSA-212165 Epigenetic regulation of gene expression
R-HSA-1257604 PIP3 activates AKT signaling
R-HSA-3247509 Chromatin modifying enzymes
R-HSA-74160 Gene expression (Transcription)
R-HSA-9006925 Intracellular signaling by second messengers
R-HSA-4839726 Chromatin organization
R-HSA-162582 Signal Transduction

-  Other Names for This Gene
  Alternate Gene Symbols: A5PLK4, ENST00000331320.1, ENST00000331320.10, ENST00000331320.11, ENST00000331320.2, ENST00000331320.3, ENST00000331320.4, ENST00000331320.5, ENST00000331320.6, ENST00000331320.7, ENST00000331320.8, ENST00000331320.9, MTA1_HUMAN, NM_004689, Q13330, Q86SW2, Q8NFI8, Q96GI8, uc317tei.1, uc317tei.2
UCSC ID: ENST00000331320.12_8
RefSeq Accession: NM_004689.4
Protein: Q13330 (aka MTA1_HUMAN)

-  Gene Model Information
  Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.