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    MATR3 matrin 3 [ Homo sapiens (human) ]

    Gene ID: 9782, updated on 22-May-2013
    Official Symbol
    MATR3provided by HGNC
    Official Full Name
    matrin 3provided by HGNC
    Primary source
    HGNC:6912
    See related
    Ensembl:ENSG00000015479; HPRD:05270; MIM:164015; Vega:OTTHUMG00000129229
    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
    MPD2; VCPDM
    Summary
    This locus encodes a nuclear matrix protein. Mutations at this locus have been associated with distal myopathy 2, which often includes vocal cord and pharyngeal weakness. Alternatively spliced transcript variants, including read-through transcripts with an upstream locus have been described. Related pseuodgenes have been defined on chr1 and chrX.[provided by RefSeq, Mar 2011]
    Location :
    5q31.2
    Sequence :
    Chromosome: 5; NC_000005.9 (138609441..138667366)
    See MATR3 in Epigenomics, MapViewer

    Chromosome 5 - NC_000005.9Genomic Context describing neighboring genes Neighboring gene catenin (cadherin-associated protein), alpha 1, 102kDa Neighboring gene leucine rich repeat transmembrane neuronal 2 Neighboring gene SIL1 homolog, endoplasmic reticulum chaperone (S. cerevisiae) Neighboring gene ribosomal protein L12 pseudogene 21 Neighboring gene small nucleolar RNA, H/ACA box 74A Neighboring gene small nucleolar RNA host gene 4 (non-protein coding) Neighboring gene poly(A) binding protein interacting protein 2 Neighboring gene solute carrier family 23 (nucleobase transporters), member 1 Neighboring gene marginal zone B and B1 cell-specific protein

    GeneRIFs: Gene References Into Functions What's a GeneRIF?

    Protein Gene Interaction Pubs
    Gag, Pr55 gag Overexpression of Matrin 3 increases HIV-1 Gag expression; knockdown of Matrin 3 decreases HIV-1 Gag expression PubMed
    Rev, p19 rev The interaction of HIV-1 Rev and Matrin 3 specifically requires the presence of a Rev-dependent RRE-containing RNA. Two RNA recognition motifs (residues 586-612) in Matrin 3 are required for activity on Rev/RRE PubMed
    rev HIV-1 Rev interacting protein, matrin 3 (MATR3), is identified by the in-vitro binding experiments involving cytosolic or nuclear extracts from HeLa cells. The interaction of Rev with MATR3 is increased by RRE PubMed
    Vpr, p15 vpr HIV-1 Vpr is identified to have a physical interaction with matrin 3 (MATR3) in human HEK293 and/or Jurkat cell lines by using affinity tagging and purification mass spectrometry analyses PubMed

    Go to the HIV-1, Human Protein Interaction Database

    Products Interactant Other Gene Complex Source Pubs Description
    P43243 Growth factor independent 1B GFI1B    HPRD  PubMed  
    P43243 P61978 HNRNPK    HPRD  PubMed  
    P43243 Q15365 PCBP1    HPRD  PubMed  
    P43243 Q9UNY4 TTF2    HPRD  PubMed  
    BioGRID:115126 BioGRID:113684 AIMP2    BioGRID  PubMed Two-hybrid 
    BioGRID:115126 BioGRID:107252 CALM1    BioGRID  PubMed Reconstituted Complex 
    BioGRID:115126 BioGRID:120937 CAND1    BioGRID  PubMed Affinity Capture-MS 
    BioGRID:115126 BioGRID:107452 CDK2    BioGRID  PubMed Affinity Capture-MS 
    BioGRID:115126 BioGRID:107459 CDK9    BioGRID  PubMed Affinity Capture-MS 
    BioGRID:115126 BioGRID:116183 COPS5    BioGRID  PubMed Affinity Capture-MS 
    BioGRID:115126 BioGRID:114032 CUL1    BioGRID  PubMed Affinity Capture-MS 
    BioGRID:115126 BioGRID:114030 CUL3    BioGRID  PubMed Affinity Capture-MS 
    BioGRID:115126 BioGRID:118061 DISC1    BioGRID  PubMed Two-hybrid 
    BioGRID:115126 BioGRID:108276 EGFR    BioGRID  PubMed PCA 
    BioGRID:115126 BioGRID:115119 EIF4A3    BioGRID  PubMed Affinity Capture-MS 
    BioGRID:115126 BioGRID:108621 FN1    BioGRID  PubMed Affinity Capture-MS 
    BioGRID:115126 BioGRID:113924 GFI1B    BioGRID  PubMed Two-hybrid 
    BioGRID:115126 BioGRID:131875 GSTK1    BioGRID  PubMed Affinity Capture-MS 
    BioGRID:115126 BioGRID:109268 H2AFX    BioGRID  PubMed Affinity Capture-MS 
    BioGRID:115126 BioGRID:109431 HNRNPK    BioGRID  PubMed Two-hybrid 
    BioGRID:115126 BioGRID:120824 IARS2    BioGRID  PubMed Co-fractionation 
    BioGRID:115126 BioGRID:109658 IFIT2    BioGRID  PubMed Affinity Capture-MS 
    BioGRID:115126 BioGRID:109883 ITGA4    BioGRID  PubMed Affinity Capture-MS 
    BioGRID:115126 BioGRID:115114 KIAA0101    BioGRID  PubMed Affinity Capture-MS 
    BioGRID:115126 BioGRID:110290 MAGOH    BioGRID  PubMed Affinity Capture-MS 
    BioGRID:115126 BioGRID:124137 MAP1LC3A    BioGRID  PubMed Affinity Capture-MS 
    BioGRID:115126 BioGRID:121122 MEPCE    BioGRID  PubMed Affinity Capture-MS 
    BioGRID:115126 BioGRID:115142 MRPL19    BioGRID  PubMed Co-fractionation 
    BioGRID:115126 BioGRID:117715 MYOF    BioGRID  PubMed Co-fractionation 
    BioGRID:115126 BioGRID:123146 NAA15    BioGRID  PubMed Co-fractionation 
    BioGRID:115126 BioGRID:110815 NEDD8    BioGRID  PubMed Affinity Capture-MS 
    BioGRID:115126 BioGRID:110865 NFX1    BioGRID  PubMed Affinity Capture-MS 
    BioGRID:115126 BioGRID:111126 PCBP1    BioGRID  PubMed Two-hybrid 
    BioGRID:115126 BioGRID:114775 PPT2    BioGRID  PubMed Co-fractionation 
    BioGRID:115126 BioGRID:125187 PRKCDBP    BioGRID  PubMed Co-fractionation 
    BioGRID:115126 BioGRID:121796 PTBP2    BioGRID  PubMed Two-hybrid 
    BioGRID:115126 BioGRID:111839 RANBP2    BioGRID  PubMed Co-fractionation 
    BioGRID:115126 BioGRID:118153 RRP7A    BioGRID  PubMed Co-fractionation 
    BioGRID:115126 BioGRID:116819 RRS1    BioGRID  PubMed Co-fractionation 
    BioGRID:115126 BioGRID:116067 RUVBL2    BioGRID  PubMed Affinity Capture-MS 
    BioGRID:115126 BioGRID:112188 S100A9    BioGRID  PubMed Co-fractionation 
    BioGRID:115126 BioGRID:115573 SAP18    BioGRID  PubMed Co-fractionation 
    BioGRID:115126 BioGRID:120278 SARS2    BioGRID  PubMed Co-fractionation 
    BioGRID:115126 BioGRID:121244 SMARCAD1    BioGRID  PubMed Affinity Capture-MS 
    BioGRID:115126 BioGRID:120528 SMU1    BioGRID  PubMed Co-fractionation 
    BioGRID:115126 BioGRID:114303 SNAP23    BioGRID  PubMed Two-hybrid 
    BioGRID:115126 BioGRID:119062 STOML2    BioGRID  PubMed Co-fractionation 
    BioGRID:115126 BioGRID:113188 SUMO1    BioGRID  PubMed Affinity Capture-MS; Reconstituted Complex 
    BioGRID:115126 BioGRID:112497 SUMO2    BioGRID  PubMed Affinity Capture-MS 
    BioGRID:115126 BioGRID:118090 TNFRSF21    BioGRID  PubMed Two-hybrid 
    BioGRID:115126 BioGRID:113164 UBC    BioGRID  PubMed Affinity Capture-MS 
    BioGRID:115126 BioGRID:116026 UTP14A    BioGRID  PubMed Co-fractionation 
    BioGRID:115126 BioGRID:204613 Ybx1    BioGRID  PubMed Affinity Capture-MS 
    BioGRID:115126 BioGRID:1205542 rev    BioGRID  PubMed Affinity Capture-MS 
    BioGRID:115126 BioGRID:1205541 tat    BioGRID  PubMed Reconstituted Complex 
    BioGRID:115126 BioGRID:1205540 vpr    BioGRID  PubMed Affinity Capture-MS 

    Markers

    Homology

    Clone Names

    • MGC9105, KIAA0723, DKFZp686K0542, DKFZp686K23100

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    RNA binding IEA
    Inferred from Electronic Annotation
    more info
     
    nucleotide binding IEA
    Inferred from Electronic Annotation
    more info
     
    protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    structural molecule activity TAS
    Traceable Author Statement
    more info
    PubMed 
    zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    Component Evidence Code Pubs
    nuclear inner membrane TAS
    Traceable Author Statement
    more info
    PubMed 
    nuclear matrix IEA
    Inferred from Electronic Annotation
    more info
     
    NOT nucleolus IDA
    Inferred from Direct Assay
    more info
     
    nucleus IDA
    Inferred from Direct Assay
    more info
     
    Preferred Names
    matrin-3
    Names
    matrin-3
    vocal cord and pharyngeal weakness with distal myopathy

    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_012846.1 RefSeqGene

      Range
      4650..62575
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001194954.1NP_001181883.1  matrin-3 isoform a

      Status: REVIEWED

      Description
      Transcript Variant: This variant (3) differs in the 5' UTR, compared to variant 1. Variants 1-4 encode the same isoform (a).
      Source sequence(s)
      AA233906, AB018266, AC011404, AK307872, BX537365, DC333260
      Consensus CDS
      CCDS4210.1
      UniProtKB/Swiss-Prot
      P43243
      Conserved Domains (2) summary
      cd00590
      Location:497568
      Blast Score: 121
      RRM; RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA ...
      smart00451
      Location:798833
      Blast Score: 104
      ZnF_U1; U1-like zinc finger
    2. NM_001194955.1NP_001181884.1  matrin-3 isoform a

      Status: REVIEWED

      Description
      Transcript Variant: This variant (4) differs in the 5' UTR, compared to variant 1. Variants 1-4 encode the same isoform (a).
      Source sequence(s)
      AA233906, AB018266, AC011404, AK316420, BX537365
      Consensus CDS
      CCDS4210.1
      UniProtKB/Swiss-Prot
      P43243
      Conserved Domains (2) summary
      cd00590
      Location:497568
      Blast Score: 121
      RRM; RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA ...
      smart00451
      Location:798833
      Blast Score: 104
      ZnF_U1; U1-like zinc finger
    3. NM_001194956.1NP_001181885.1  matrin-3 isoform b

      Status: REVIEWED

      Description
      Transcript Variant: This variant (5) differs in the 5' UTR, lacks a portion of the 5' coding region, and initiates translation at an alternate start codon, compared to variant 1. The encoded isoform (b) has a distinct N-terminus and is shorter than isoform 1.
      Source sequence(s)
      AA233906, AC011404, AK316420, BX537365
      Consensus CDS
      CCDS54908.1
      UniProtKB/Swiss-Prot
      P43243
      Conserved Domains (2) summary
      cd00590
      Location:209280
      Blast Score: 119
      RRM; RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA ...
      smart00451
      Location:510545
      Blast Score: 102
      ZnF_U1; U1-like zinc finger
    4. NM_018834.5NP_061322.2  matrin-3 isoform a

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR, compared to variant 1. Variants 1-4 encode the same isoform (a).
      Source sequence(s)
      AA233906, AC011404, AY007157, BX537365, DC401586
      Consensus CDS
      CCDS4210.1
      UniProtKB/Swiss-Prot
      P43243
      UniProtKB/TrEMBL
      Q9H4N1
      Related
      ENSP00000378284, OTTHUMP00000159532, ENST00000394805, OTTHUMT00000251324
      Conserved Domains (2) summary
      cd00590
      Location:497568
      Blast Score: 121
      RRM; RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA ...
      smart00451
      Location:798833
      Blast Score: 104
      ZnF_U1; U1-like zinc finger
    5. NM_199189.2NP_954659.1  matrin-3 isoform a

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes the longer isoform (a). Variants 1-4 encode the same isoform (a).
      Source sequence(s)
      AA233906, AB018266, AC011404, AK307872, BX537365, DC333260
      Consensus CDS
      CCDS4210.1
      UniProtKB/Swiss-Prot
      P43243
      Related
      ENSP00000378279, OTTHUMP00000159531, ENST00000394800, OTTHUMT00000251323
      Conserved Domains (2) summary
      cd00590
      Location:497568
      Blast Score: 121
      RRM; RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA ...
      smart00451
      Location:798833
      Blast Score: 104
      ZnF_U1; U1-like zinc finger

    RNA

    1. NR_036535.1 RNA Sequence

      Status: REVIEWED

      Description
      Transcript Variant: This variant (6) lacks an alternate internal exon, compared to variant 1. This variant is represented as non-coding because it lacks a significant portion of the coding region, including the translational start codon, found in variant 1. Also, this transcript has upstream ORFs that are predicted to interfere with translation of the longest ORF.
      Source sequence(s)
      AA233906, AB018266, AC011404, AK293952, AK307872, BX537365, DC333260

    RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 104

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

    Reference GRCh37.p10 Primary Assembly

    Genomic

    1. NC_000005.9 Reference GRCh37.p10 Primary Assembly

      Range
      138609441..138667366
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate HuRef

    Genomic

    1. AC_000137.1 Alternate HuRef

      Range
      133798796..133857165
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate CHM1_1.0

    Genomic

    1. NC_018916.1 Alternate CHM1_1.0

      Range
      138885680..138943609
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

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