Human Gene TRIR (ENST00000242784.5) from GENCODE V44
  Description: Homo sapiens telomerase RNA component interacting RNase (TRIR), transcript variant 1, mRNA. (from RefSeq NM_024038)
Gencode Transcript: ENST00000242784.5
Gencode Gene: ENSG00000123144.11
Transcript (Including UTRs)
   Position: hg38 chr19:12,730,640-12,734,684 Size: 4,045 Total Exon Count: 3 Strand: -
Coding Region
   Position: hg38 chr19:12,730,961-12,734,657 Size: 3,697 Coding Exon Count: 3 

Page IndexSequence and LinksPrimersRNA-Seq ExpressionMicroarray ExpressionRNA Structure
Protein StructureOther SpeciesGO AnnotationsmRNA DescriptionsOther NamesMethods
Data last updated at UCSC: 2023-08-18 00:09:47

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr19:12,730,640-12,734,684)mRNA (may differ from genome)Protein (176 aa)
Gene SorterGenome BrowserOther Species FASTATable SchemaAlphaFoldBioGPS
EnsemblEntrez GeneExonPrimerGencodeGeneCardsHPRD
LynxMalacardsMGIneXtProtPubMedUniProtKB
BioGrid 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


-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 144.35 RPKM in Spleen
Total median expression: 5054.97 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 -5.8027-0.215 Picture PostScript Text
3' UTR -74.70321-0.233 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
  ModBase Predicted Comparative 3D Structure on Q9BQ61
FrontTopSide
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
Genome BrowserGenome BrowserGenome BrowserGenome BrowserNo orthologNo ortholog
Gene Details     
Gene Sorter     
MGIRGDEnsemblEnsembl  
Protein SequenceProtein SequenceProtein SequenceProtein Sequence  
AlignmentAlignmentAlignmentAlignment  

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003723 RNA binding
GO:0004518 nuclease activity
GO:0004527 exonuclease activity
GO:0005515 protein binding
GO:0008408 3'-5' exonuclease activity
GO:0008409 5'-3' exonuclease activity
GO:0016787 hydrolase activity

Biological Process:
GO:0016075 rRNA catabolic process
GO:0090503 RNA phosphodiester bond hydrolysis, exonucleolytic


-  Descriptions from all associated GenBank mRNAs
  LF208191 - JP 2014500723-A/15694: Polycomb-Associated Non-Coding RNAs.
MA443768 - JP 2018138019-A/15694: Polycomb-Associated Non-Coding RNAs.
BC004533 - Homo sapiens chromosome 19 open reading frame 43, mRNA (cDNA clone MGC:2964 IMAGE:3139656), complete cds.
BC015347 - Homo sapiens chromosome 19 open reading frame 43, mRNA (cDNA clone MGC:21372 IMAGE:4156774), complete cds.
AK027588 - Homo sapiens cDNA FLJ14682 fis, clone NT2RP2004463.
BC000216 - Homo sapiens chromosome 19 open reading frame 43, mRNA (cDNA clone MGC:2803 IMAGE:2961319), complete cds.
BC001840 - Homo sapiens cDNA clone IMAGE:2961319, **** WARNING: chimeric clone ****.
AF061732 - Homo sapiens clone 017d02 My029 protein mRNA, complete cds.
JD508250 - Sequence 489274 from Patent EP1572962.
JD150395 - Sequence 131419 from Patent EP1572962.
LF373375 - JP 2014500723-A/180878: Polycomb-Associated Non-Coding RNAs.
MA608952 - JP 2018138019-A/180878: Polycomb-Associated Non-Coding RNAs.
JD261343 - Sequence 242367 from Patent EP1572962.
JD164077 - Sequence 145101 from Patent EP1572962.
JD389641 - Sequence 370665 from Patent EP1572962.
JD389265 - Sequence 370289 from Patent EP1572962.
LF373373 - JP 2014500723-A/180876: Polycomb-Associated Non-Coding RNAs.
MA608950 - JP 2018138019-A/180876: Polycomb-Associated Non-Coding RNAs.
JD138347 - Sequence 119371 from Patent EP1572962.
JD202738 - Sequence 183762 from Patent EP1572962.
AK315754 - Homo sapiens cDNA, FLJ96865.
KJ899510 - Synthetic construct Homo sapiens clone ccsbBroadEn_08904 C19orf43 gene, encodes complete protein.
DQ891449 - Synthetic construct clone IMAGE:100004079; FLH177049.01X; RZPDo839C06124D chromosome 19 open reading frame 43 (C19orf43) gene, encodes complete protein.
DQ894628 - Synthetic construct Homo sapiens clone IMAGE:100009088; FLH177046.01L; RZPDo839C06123D chromosome 19 open reading frame 43 (C19orf43) gene, encodes complete protein.
DQ592759 - Homo sapiens piRNA piR-59871, complete sequence.
LF373371 - JP 2014500723-A/180874: Polycomb-Associated Non-Coding RNAs.
MA608948 - JP 2018138019-A/180874: Polycomb-Associated Non-Coding RNAs.
CU677275 - Synthetic construct Homo sapiens gateway clone IMAGE:100017965 5' read C19orf43 mRNA.
BC040846 - Homo sapiens chromosome 19 open reading frame 43, mRNA (cDNA clone IMAGE:4394494).
LF373362 - JP 2014500723-A/180865: Polycomb-Associated Non-Coding RNAs.
MA608939 - JP 2018138019-A/180865: Polycomb-Associated Non-Coding RNAs.

-  Other Names for This Gene
  Alternate Gene Symbols: C19orf43, CS043_HUMAN, ENST00000242784.1, ENST00000242784.2, ENST00000242784.3, ENST00000242784.4, NM_024038, Q9BQ61, uc002muu.1, uc002muu.2, uc002muu.3, uc002muu.4, uc002muu.5
UCSC ID: ENST00000242784.5
RefSeq Accession: NM_024038
Protein: Q9BQ61 (aka CS043_HUMAN)
CCDS: CCDS12279.1

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