Human Gene MATR3 (ENST00000361059.7_7) from GENCODE V47lift37
  Description: matrin 3, transcript variant 1 (from RefSeq NM_199189.3)
Gencode Transcript: ENST00000361059.7_7
Gencode Gene: ENSG00000280987.4_18
Transcript (Including UTRs)
   Position: hg19 chr5:138,609,792-138,666,083 Size: 56,292 Total Exon Count: 18 Strand: +
Coding Region
   Position: hg19 chr5:138,643,105-138,665,084 Size: 21,980 Coding Exon Count: 14 

Page IndexSequence and LinksPrimersMalaCardsCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureOther SpeciesmRNA DescriptionsPathways
Other NamesGeneReviewsModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr5:138,609,792-138,666,083)mRNA (may differ from genome)Protein (847 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMalacardsMGIOMIMPubMedUniProtKB
WikipediaBioGrid CRISPR DB

-  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: MATR3
Diseases sorted by gene-association score: amyotrophic lateral sclerosis 21* (1580), distal myopathy with vocal cord weakness* (500), amyotrophic lateral sclerosis 1* (84), aortic coarctation (10), lateral sclerosis (6), patent ductus arteriosus (6), myopathy (4), dementia, frontotemporal (1)
* = Manually curated disease association

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene
  • D001564 Benzo(a)pyrene
  • D004997 Ethinyl Estradiol
  • C049325 1,2-dithiol-3-thione
  • C028474 1,4-bis(2-(3,5-dichloropyridyloxy))benzene
  • C029790 2,2',3',4,4',5-hexachlorobiphenyl
  • C023514 2,6-dinitrotoluene
  • C049584 2-amino-1-methyl-6-phenylimidazo(4,5-b)pyridine
  • C030370 2-methoxy-5-(2',3',4'-trimethoxyphenyl)tropone
  • D015123 7,8-Dihydro-7,8-dihydroxybenzo(a)pyrene 9,10-oxide
  • D016604 Aflatoxin B1
          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: 80.33 RPKM in Brain - Cerebellar Hemisphere
Total median expression: 1747.28 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 -131.80427-0.309 Picture PostScript Text
3' UTR -202.90999-0.203 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.

-  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    
Gene SorterGene Sorter    
 RGD    
      
      

-  Descriptions from all associated GenBank mRNAs
  AK307872 - Homo sapiens cDNA, FLJ97820.
BC036498 - Homo sapiens matrin 3, mRNA (cDNA clone IMAGE:5264426), with apparent retained intron.
CR749625 - Homo sapiens mRNA; cDNA DKFZp686K23100 (from clone DKFZp686K23100).
AK293952 - Homo sapiens cDNA FLJ55637 complete cds, highly similar to Matrin-3.
AJ224170 - Homo sapiens mRNA containing U19H snoRNA; mRNA 5.
AJ224167 - Homo sapiens mRNA containing U19H snoRNA; mRNA 2.
AJ224168 - Homo sapiens mRNA containing U19H snoRNA; mRNA 3.
AJ224166 - Homo sapiens mRNA containing U19H snoRNA; mRNA 1.
AJ224169 - Homo sapiens mRNA containing U19H snoRNA; mRNA 4.
BX537365 - Homo sapiens mRNA; cDNA DKFZp686I0486 (from clone DKFZp686I0486).
AK316420 - Homo sapiens cDNA, FLJ79319 complete cds, highly similar to Matrin-3.
CR749210 - Homo sapiens mRNA; cDNA DKFZp686L22104 (from clone DKFZp686L22104).
AK299399 - Homo sapiens cDNA FLJ53172 complete cds, highly similar to Matrin-3.
AK057645 - Homo sapiens cDNA FLJ33083 fis, clone TRACH2000393, highly similar to Rattus norvegicus matrin 3 mRNA.
AB018266 - Homo sapiens KIAA0723 mRNA for KIAA0723 protein.
AF117236 - Homo sapiens matrin 3 mRNA, complete cds.
BC015031 - Homo sapiens matrin 3, mRNA (cDNA clone MGC:9105 IMAGE:3921668), complete cds.
CU677185 - Synthetic construct Homo sapiens gateway clone IMAGE:100017500 5' read MATR3 mRNA.
DQ894337 - Synthetic construct Homo sapiens clone IMAGE:100008797; FLH169834.01L; RZPDo839G0995D matrin 3 (MATR3) gene, encodes complete protein.
AB383966 - Synthetic construct DNA, clone: pF1KSDA0723, Homo sapiens MATR3 gene for matrin-3, complete cds, without stop codon, in Flexi system.
EU176255 - Synthetic construct Homo sapiens clone IMAGE:100006369; FLH169841.01X; RZPDo839E09250D matrin 3 (MATR3) gene, encodes complete protein.
DQ600351 - Homo sapiens piRNA piR-38417, complete sequence.
AK001388 - Homo sapiens cDNA FLJ10526 fis, clone NT2RP2000931, highly similar to Matrin-3.
BX647153 - Homo sapiens mRNA; cDNA DKFZp686J16244 (from clone DKFZp686J16244).
CR936615 - Homo sapiens mRNA; cDNA DKFZp686K0542 (from clone DKFZp686K0542).
AK309195 - Homo sapiens cDNA, FLJ99236.
M63483 - Human major nuclear matrix protein mRNA.
AY007157 - Homo sapiens clone CDABP0107 mRNA sequence.
JD528492 - Sequence 509516 from Patent EP1572962.
JD049906 - Sequence 30930 from Patent EP1572962.
JD094750 - Sequence 75774 from Patent EP1572962.
JD327747 - Sequence 308771 from Patent EP1572962.
JD315695 - Sequence 296719 from Patent EP1572962.
AL117541 - Homo sapiens mRNA; cDNA DKFZp434I132 (from clone DKFZp434I132).
JD288544 - Sequence 269568 from Patent EP1572962.
JD233747 - Sequence 214771 from Patent EP1572962.
JD509874 - Sequence 490898 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  BioCarta from NCI Cancer Genome Anatomy Project
h_antisensePathway - RNA polymerase III transcription

-  Other Names for This Gene
  Alternate Gene Symbols: A0A0R4J2E8, A0A0R4J2E8_HUMAN, ENST00000361059.1, ENST00000361059.2, ENST00000361059.3, ENST00000361059.4, ENST00000361059.5, ENST00000361059.6, MATR3 , NM_199189, uc318bvv.1
UCSC ID: ENST00000361059.7_7
RefSeq Accession: NM_199189.3

-  GeneReviews for This Gene
  GeneReviews article(s) related to gene MATR3:
als-overview (Amyotrophic Lateral Sclerosis Overview)

-  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.