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HNRNPR heterogeneous nuclear ribonucleoprotein R [ Homo sapiens (human) ]

Gene ID: 10236, updated on 17-Jun-2019

Summary

Official Symbol
HNRNPRprovided by HGNC
Official Full Name
heterogeneous nuclear ribonucleoprotein Rprovided by HGNC
Primary source
HGNC:HGNC:5047
See related
Ensembl:ENSG00000125944 MIM:607201
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
HNRPR; hnRNP-R
Summary
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]
Expression
Ubiquitous expression in lymph node (RPKM 17.7), appendix (RPKM 17.6) and 25 other tissues See more
Orthologs

Genomic context

See HNRNPR in Genome Data Viewer
Location:
1p36.12
Exon count:
11
Annotation release Status Assembly Chr Location
109.20190607 current GRCh38.p13 (GCF_000001405.39) 1 NC_000001.11 (23304688..23344316, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (23635953..23671143, complement)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene ribosomal protein L29 pseudogene 6 Neighboring gene long intergenic non-protein coding RNA 1355 Neighboring gene MIR1 retrotransposon enhancer-blocking element Neighboring gene zinc finger protein 436 Neighboring gene ZNF436 antisense RNA 1

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

HIV-1 interactions

Protein interactions

Protein Gene Interaction Pubs
Envelope surface glycoprotein gp120 env Tandem affinity purification and mass spectrometry analysis identify heterogeneous nuclear ribonucleoprotein R (HNRNPR), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into staufen1 RNP complexes isolated from HIV-1-expressing cells PubMed
Gag-Pol gag-pol Tandem affinity purification and mass spectrometry analysis identify heterogeneous nuclear ribonucleoprotein R (HNRNPR), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into staufen1 RNP complexes isolated from HIV-1-expressing cells PubMed
Nef nef Tandem affinity purification and mass spectrometry analysis identify heterogeneous nuclear ribonucleoprotein R (HNRNPR), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into staufen1 RNP complexes isolated from HIV-1-expressing cells PubMed
Pr55(Gag) gag Tandem affinity purification and mass spectrometry analysis identify heterogeneous nuclear ribonucleoprotein R (HNRNPR), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into staufen1 RNP complexes isolated from HIV-1-expressing cells PubMed
Rev rev HIV-1 Rev interacting protein, heterogeneous nuclear ribonucleoprotein R (HNRNPR), is identified by the in-vitro binding experiments involving cytosolic or nuclear extracts from HeLa cells. The interaction of Rev with HNRNPR is increased by RRE PubMed
rev HIV-1 Rev involves its amino acids 9-14 for specific binding to the heterogeneous nuclear ribonucleoproteins (hnRNP) R PubMed

Go to the HIV-1, Human Interaction Database

Pathways from BioSystems

  • Gene Expression, organism-specific biosystem (from REACTOME)
    Gene Expression, organism-specific biosystemGene Expression covers the pathways by which genomic DNA is transcribed to yield RNA, the regulation of these transcription processes, and the pathways by which newly-made RNA Transcripts are process...
  • Processing of Capped Intron-Containing Pre-mRNA, organism-specific biosystem (from REACTOME)
    Processing of Capped Intron-Containing Pre-mRNA, organism-specific biosystemCo-transcriptional pre-mRNA splicing is not obligatory. Pre-mRNA splicing begins co-transcriptionally and often continues post-transcriptionally. Human genes contain an average of nine introns per ge...
  • mRNA Processing, organism-specific biosystem (from WikiPathways)
    mRNA Processing, organism-specific biosystemThis process describes the conversion of precursor messenger RNA into mature messenger RNA (mRNA). The pre-mRNA molecule undergoes three main modifications. These modifications are 5' capping, 3' po...
  • mRNA Splicing, organism-specific biosystem (from REACTOME)
    mRNA Splicing, organism-specific biosystemThe process in which excision of introns from the primary transcript of messenger RNA (mRNA) is followed by ligation of the two exon termini exposed by removal of each intron, is called mRNA splicing...
  • mRNA Splicing - Major Pathway, organism-specific biosystem (from REACTOME)
    mRNA Splicing - Major Pathway, organism-specific biosystemThe splicing of pre-mRNA occurs within a large, very dynamic complex, designated the 'spliceosome'. The 50-60S spliceosomes are estimated to be 40-60 nm in diameter, and have molecular weights in the...

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • FLJ25714

Gene Ontology Provided by GOA

Function Evidence Code Pubs
RNA binding HDA PubMed 
RNA binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
RNA binding NAS
Non-traceable Author Statement
more info
PubMed 
mRNA 3'-UTR binding IEA
Inferred from Electronic Annotation
more info
 
mRNA binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
RNA metabolic process TAS
Traceable Author Statement
more info
 
circadian rhythm IEA
Inferred from Electronic Annotation
more info
 
mRNA destabilization IEA
Inferred from Electronic Annotation
more info
 
mRNA processing NAS
Non-traceable Author Statement
more info
PubMed 
mRNA splicing, via spliceosome IC
Inferred by Curator
more info
PubMed 
mRNA splicing, via spliceosome TAS
Traceable Author Statement
more info
 
negative regulation of catalytic activity IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
axon terminus IEA
Inferred from Electronic Annotation
more info
 
catalytic step 2 spliceosome IDA
Inferred from Direct Assay
more info
PubMed 
dendrite IEA
Inferred from Electronic Annotation
more info
 
endoplasmic reticulum IEA
Inferred from Electronic Annotation
more info
 
growth cone IEA
Inferred from Electronic Annotation
more info
 
NOT nucleolus IDA
Inferred from Direct Assay
more info
PubMed 
nucleoplasm IDA
Inferred from Direct Assay
more info
PubMed 
nucleoplasm TAS
Traceable Author Statement
more info
 
nucleus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
ribonucleoprotein complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
ribonucleoprotein complex IDA
Inferred from Direct Assay
more info
PubMed 
spliceosomal complex NAS
Non-traceable Author Statement
more info
PubMed 

General protein information

Preferred Names
heterogeneous nuclear ribonucleoprotein R

NCBI Reference Sequences (RefSeq)

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.

mRNA and Protein(s)

  1. NM_001102397.3NP_001095867.1  heterogeneous nuclear ribonucleoprotein R isoform 4

    See identical proteins and their annotated locations for NP_001095867.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4) lacks an alternate exon in the 5' region and uses an alternate in-frame splice site, compared to variant 1. It initiates translation at a downstream in-frame start codon. The encoded isoform (4) is shorter than isoform 1.
    Source sequence(s)
    AL109936, BC110389, BX647784
    UniProtKB/TrEMBL
    Q0VGD6
    Conserved Domains (1) summary
    TIGR01648
    Location:5527
    hnRNP-R-Q; heterogeneous nuclear ribonucleoprotein R, Q family
  2. NM_001102398.3NP_001095868.1  heterogeneous nuclear ribonucleoprotein R isoform 1

    See identical proteins and their annotated locations for NP_001095868.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).
    Source sequence(s)
    AL109936, BC001449, BX647784
    Consensus CDS
    CCDS44085.1
    UniProtKB/Swiss-Prot
    O43390
    Related
    ENSP00000363745.3, ENST00000374616.7
    Conserved Domains (1) summary
    cl25617
    Location:106631
    LSM_int_assoc; LSM-interacting associated unstructured
  3. NM_001102399.3NP_001095869.1  heterogeneous nuclear ribonucleoprotein R isoform 3

    See identical proteins and their annotated locations for NP_001095869.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) lacks an alternate exon in the 5' region and initiates translation at a downstream in-frame start codon, compared to variant 1. The encoded isoform (3) has a shorter N-terminus than isoform 1.
    Source sequence(s)
    AL109936, BC110389, BX640912, BX647784
    Consensus CDS
    CCDS60020.1
    UniProtKB/TrEMBL
    Q0VGD6, Q6MZS5
    Related
    ENSP00000474437.1, ENST00000478691.5
    Conserved Domains (1) summary
    TIGR01648
    Location:5530
    hnRNP-R-Q; heterogeneous nuclear ribonucleoprotein R, Q family
  4. NM_001297620.2NP_001284549.1  heterogeneous nuclear ribonucleoprotein R isoform 5

    See identical proteins and their annotated locations for NP_001284549.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (5, also known as R2) lacks an in-frame exon and uses an alternate in-frame splice site, compared to variant 1. The encoded isoform (5) is shorter than isoform 1.
    Source sequence(s)
    AK297382, AL109936, BX647784, DA496215
    Consensus CDS
    CCDS72727.1
    UniProtKB/Swiss-Prot
    O43390
    UniProtKB/TrEMBL
    B4DMB1
    Conserved Domains (1) summary
    cl25617
    Location:106590
    LSM_int_assoc; LSM-interacting associated unstructured
  5. NM_001297621.2NP_001284550.1  heterogeneous nuclear ribonucleoprotein R isoform 7

    See identical proteins and their annotated locations for NP_001284550.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (7) lacks multiple exons in the 5' region and uses an alternate in-frame splice site, compared to variant 1. It initiates translation at a downstream in-frame start codon. The encoded isoform (7) is shorter than isoform 1.
    Source sequence(s)
    AK297405, AL109936, AU126696, BX647784, DA496215
    UniProtKB/TrEMBL
    B4DMD1
    Conserved Domains (1) summary
    cl25617
    Location:5468
    LSM_int_assoc; LSM-interacting associated unstructured
  6. NM_001297622.2NP_001284551.1  heterogeneous nuclear ribonucleoprotein R isoform 6

    See identical proteins and their annotated locations for NP_001284551.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (6) lacks multiple exons in the 5' region and uses an alternate in-frame splice site, compared to variant 1. It initiates translation at a downstream in-frame start codon. The encoded isoform (6) is shorter than isoform 1.
    Source sequence(s)
    AK311519, AL109936, BC110389, BX647784, DA496215
    Consensus CDS
    CCDS72726.1
    UniProtKB/TrEMBL
    B4DT28, Q0VGD6
    Related
    ENSP00000475760.1, ENST00000606561.5
    Conserved Domains (1) summary
    cl25617
    Location:5489
    LSM_int_assoc; LSM-interacting associated unstructured
  7. NM_005826.5NP_005817.1  heterogeneous nuclear ribonucleoprotein R isoform 2

    See identical proteins and their annotated locations for NP_005817.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2, also known as R1) uses an alternate in-frame splice site, compared to variant 1. The encoded isoform (2) is shorter than isoform 1.
    Source sequence(s)
    AF000364, AL109936, BX647784, DA496215
    Consensus CDS
    CCDS232.1
    UniProtKB/Swiss-Prot
    O43390
    Related
    ENSP00000304405.6, ENST00000302271.11
    Conserved Domains (1) summary
    TIGR01648
    Location:106628
    hnRNP-R-Q; heterogeneous nuclear ribonucleoprotein R, Q family

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000001.11 Reference GRCh38.p13 Primary Assembly

    Range
    23304688..23344316 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011540476.3XP_011538778.1  heterogeneous nuclear ribonucleoprotein R isoform X7

    See identical proteins and their annotated locations for XP_011538778.1

    Conserved Domains (3) summary
    cd12494
    Location:204275
    RRM3_hnRNPR; RNA recognition motif 3 in vertebrate heterogeneous nuclear ribonucleoprotein R (hnRNP R)
    TIGR01648
    Location:5492
    hnRNP-R-Q; heterogeneous nuclear ribonucleoprotein R, Q family
    cl17169
    Location:105192
    RRM_SF; RNA recognition motif (RRM) superfamily
  2. XM_011540477.3XP_011538779.1  heterogeneous nuclear ribonucleoprotein R isoform X8

    See identical proteins and their annotated locations for XP_011538779.1

    Conserved Domains (3) summary
    cd12494
    Location:183254
    RRM3_hnRNPR; RNA recognition motif 3 in vertebrate heterogeneous nuclear ribonucleoprotein R (hnRNP R)
    TIGR01648
    Location:5471
    hnRNP-R-Q; heterogeneous nuclear ribonucleoprotein R, Q family
    cl17169
    Location:84171
    RRM_SF; RNA recognition motif (RRM) superfamily
  3. XM_011540475.3XP_011538777.1  heterogeneous nuclear ribonucleoprotein R isoform X4

    See identical proteins and their annotated locations for XP_011538777.1

    Conserved Domains (1) summary
    cl25617
    Location:106593
    LSM_int_assoc; LSM-interacting associated unstructured
  4. XM_017000010.2XP_016855499.1  heterogeneous nuclear ribonucleoprotein R isoform X6

    Conserved Domains (1) summary
    TIGR01648
    Location:106569
    hnRNP-R-Q; heterogeneous nuclear ribonucleoprotein R, Q family
  5. XM_017000009.2XP_016855498.1  heterogeneous nuclear ribonucleoprotein R isoform X6

    Conserved Domains (1) summary
    TIGR01648
    Location:106569
    hnRNP-R-Q; heterogeneous nuclear ribonucleoprotein R, Q family
  6. XM_005245711.5XP_005245768.1  heterogeneous nuclear ribonucleoprotein R isoform X2

    See identical proteins and their annotated locations for XP_005245768.1

    UniProtKB/Swiss-Prot
    O43390
    Related
    ENSP00000363741.1, ENST00000374612.5
    Conserved Domains (1) summary
    TIGR01648
    Location:106628
    hnRNP-R-Q; heterogeneous nuclear ribonucleoprotein R, Q family
  7. XM_011540471.3XP_011538773.1  heterogeneous nuclear ribonucleoprotein R isoform X1

    See identical proteins and their annotated locations for XP_011538773.1

    UniProtKB/Swiss-Prot
    O43390
    Conserved Domains (1) summary
    cl25617
    Location:106631
    LSM_int_assoc; LSM-interacting associated unstructured
  8. XM_017000008.2XP_016855497.1  heterogeneous nuclear ribonucleoprotein R isoform X5

    UniProtKB/Swiss-Prot
    O43390
    Related
    ENSP00000392799.2, ENST00000427764.3
    Conserved Domains (1) summary
    cl25617
    Location:106590
    LSM_int_assoc; LSM-interacting associated unstructured
  9. XM_011540474.3XP_011538776.1  heterogeneous nuclear ribonucleoprotein R isoform X4

    See identical proteins and their annotated locations for XP_011538776.1

    Conserved Domains (1) summary
    cl25617
    Location:106593
    LSM_int_assoc; LSM-interacting associated unstructured
  10. XM_011540472.3XP_011538774.1  heterogeneous nuclear ribonucleoprotein R isoform X3

    See identical proteins and their annotated locations for XP_011538774.1

    Conserved Domains (1) summary
    cl25617
    Location:106572
    LSM_int_assoc; LSM-interacting associated unstructured

Reference GRCh38.p13 PATCHES

Genomic

  1. NW_014040926.1 Reference GRCh38.p13 PATCHES

    Range
    74667..114263 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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