Human Gene HNRNPR (uc001bgp.4) Description and Page Index
  Description: Homo sapiens heterogeneous nuclear ribonucleoprotein R (HNRNPR), transcript variant 1, mRNA.
RefSeq Summary (NM_001102398): This gene encodes an RNA-binding protein that is a member of the spliceosome C complex, which functions in pre-mRNA processing and transport. The encoded protein also promotes transcription at the c-fos gene. Alternative splicing results in multiple transcript variants. There are pseudogenes for this gene on chromosomes 4, 11, and 10. [provided by RefSeq, Jul 2014].
Transcript (Including UTRs)
   Position: hg19 chr1:23,636,276-23,670,853 Size: 34,578 Total Exon Count: 11 Strand: -
Coding Region
   Position: hg19 chr1:23,636,947-23,667,501 Size: 30,555 Coding Exon Count: 10 

Page IndexSequence and LinksMalaCardsCTDGene AllelesRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesmRNA DescriptionsPathways
Other NamesModel InformationMethods
Data last updated: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr1:23,636,276-23,670,853)mRNA (may differ from genome)Protein (636 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
BioGPSCGAPEnsemblEntrez GeneExonPrimerGeneCards
H-INVHGNCHPRDLynxMGIOMIM
PubMedReactomeStanford SOURCETreefamUniProtKBWikipedia

-  MalaCards Disease Associations
  MalaCards Gene Search: HNRNPR
Diseases sorted by gene-association score: spinal muscular atrophy (2)

-  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: 26.85 RPKM in Cells - EBV-transformed lymphocytes
Total median expression: 687.48 RPKM



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

+  Microarray Expression Data
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-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -68.00159-0.428 Picture PostScript Text
3' UTR -144.05671-0.215 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
  Pfam Domains:
PF00076 - RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain)
PF13893 - RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain)

SCOP Domains:
54928 - RNA-binding domain, RBD

ModBase Predicted Comparative 3D Structure on O43390-2
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
No orthologGenome BrowserNo orthologNo orthologNo orthologNo ortholog
 Gene Details    
 Gene Sorter    
 RGD    
 Protein Sequence    
 Alignment    

-  Descriptions from all associated GenBank mRNAs
  BX647784 - Homo sapiens mRNA; cDNA DKFZp686F0586 (from clone DKFZp686F0586).
BX640912 - Homo sapiens mRNA; cDNA DKFZp686A13234 (from clone DKFZp686A13234).
BC001449 - Homo sapiens heterogeneous nuclear ribonucleoprotein R, mRNA (cDNA clone MGC:2039 IMAGE:3139052), complete cds.
LP895168 - Sequence 32 from Patent EP3253886.
AK098580 - Homo sapiens cDNA FLJ25714 fis, clone TST05093, highly similar to Homo sapiens heterogeneous nuclear ribonucleoprotein R mRNA.
BX538163 - Homo sapiens mRNA; cDNA DKFZp686O0665 (from clone DKFZp686O0665); complete cds.
AF000364 - Homo sapiens heterogeneous nuclear ribonucleoprotein R mRNA, complete cds.
BC110389 - Homo sapiens heterogeneous nuclear ribonucleoprotein R, mRNA (cDNA clone IMAGE:5187023), partial cds.
JD551120 - Sequence 532144 from Patent EP1572962.
JD288705 - Sequence 269729 from Patent EP1572962.
AK297382 - Homo sapiens cDNA FLJ53358 complete cds, highly similar to Heterogeneous nuclear ribonucleoprotein R.
AK300029 - Homo sapiens cDNA FLJ54544 complete cds, highly similar to Heterogeneous nuclear ribonucleoprotein R.
AK297405 - Homo sapiens cDNA FLJ53360 complete cds, highly similar to Heterogeneous nuclear ribonucleoprotein R.
DQ351905 - Homo sapiens heterogeneous nuclear ribonucleoprotein-R2 mRNA, complete cds.
DQ892168 - Synthetic construct clone IMAGE:100004798; FLH183638.01X; RZPDo839E11142D heterogeneous nuclear ribonucleoprotein R (HNRPR) gene, encodes complete protein.
AK313142 - Homo sapiens cDNA, FLJ93632, highly similar to Homo sapiens heterogeneous nuclear ribonucleoprotein R (HNRPR), mRNA.
KJ892971 - Synthetic construct Homo sapiens clone ccsbBroadEn_02365 HNRNPR gene, encodes complete protein.
DQ895362 - Synthetic construct Homo sapiens clone IMAGE:100009822; FLH183634.01L; RZPDo839E11141D heterogeneous nuclear ribonucleoprotein R (HNRPR) gene, encodes complete protein.
AB385093 - Synthetic construct DNA, clone: pF1KB5396, Homo sapiens HNRNPR gene for heterogeneous nuclear ribonucleoprotein R, complete cds, without stop codon, in Flexi system.
AK311519 - Homo sapiens cDNA, FLJ18561.
CU674710 - Synthetic construct Homo sapiens gateway clone IMAGE:100017747 5' read HNRPR mRNA.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein O43390 (Reactome details) participates in the following event(s):

R-HSA-72103 Formation of pre-mRNPs
R-HSA-72107 Formation of the Spliceosomal E complex
R-HSA-72124 Formation of the Spliceosomal A Complex
R-HSA-72127 Formation of the Spliceosomal B Complex
R-HSA-72130 Formation of an intermediate Spliceosomal C (Bact) complex
R-HSA-72143 Lariat Formation and 5'-Splice Site Cleavage
R-HSA-72139 Formation of the active Spliceosomal C (B*) complex
R-HSA-156661 Formation of Exon Junction Complex
R-HSA-72203 Processing of Capped Intron-Containing Pre-mRNA
R-HSA-72163 mRNA Splicing - Major Pathway
R-HSA-8953854 Metabolism of RNA
R-HSA-72172 mRNA Splicing

-  Other Names for This Gene
  Alternate Gene Symbols: HNRPR, NM_001102398, NP_001095869, O43390-2
UCSC ID: uc001bgp.4
RefSeq Accession: NM_001102398
Protein: O43390-2, splice isoform of O43390 CCDS: CCDS232.1, CCDS44085.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_001102398.1
exon count: 11CDS single in 3' UTR: no RNA size: 2760
ORF size: 1911CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 4022.00frame shift in genome: no % Coverage: 99.31
has start codon: yes stop codon in genome: no # of Alignments: 1
has end codon: yes retained intron: no # AT/AC introns 0
selenocysteine: no end bleed into intron: 0# strange splices: 1
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.