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Hnrnpu heterogeneous nuclear ribonucleoprotein U [ Mus musculus (house mouse) ]

Gene ID: 51810, updated on 8-Jan-2023

Summary

Official Symbol
Hnrnpuprovided by MGI
Official Full Name
heterogeneous nuclear ribonucleoprotein Uprovided by MGI
Primary source
MGI:MGI:1858195
See related
Ensembl:ENSMUSG00000039630 AllianceGenome:MGI:1858195
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
SAFA; Hnrpu; Sp120; hnRNP U
Summary
Enables RNA polymerase II C-terminal domain binding activity; nucleic acid binding activity; and promoter-specific chromatin binding activity. Involved in several processes, including RNA localization to chromatin; cellular response to leukemia inhibitory factor; and regulation of gene expression. Acts upstream of or within with a positive effect on mRNA metabolic process. Acts upstream of or within cardiac muscle cell development. Located in inactive sex chromosome and nucleus. Part of ribonucleoprotein complex. Is expressed in several structures, including branchial arch; future brain; limb primordium; tail bud; and unsegmented mesenchyme. Human ortholog(s) of this gene implicated in developmental and epileptic encephalopathy 54. Orthologous to human HNRNPU (heterogeneous nuclear ribonucleoprotein U). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Broad expression in CNS E11.5 (RPKM 88.9), CNS E14 (RPKM 47.2) and 25 other tissues See more
Orthologs
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Genomic context

See Hnrnpu in Genome Data Viewer
Location:
1; 1 H4
Exon count:
18
Annotation release Status Assembly Chr Location
109 current GRCm39 (GCF_000001635.27) 1 NC_000067.7 (178148673..178170063, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 1 NC_000067.6 (178321108..178338891, complement)

Chromosome 1 - NC_000067.7Genomic Context describing neighboring genes Neighboring gene predicted gene, 46174 Neighboring gene RIKEN cDNA B230369F24 gene Neighboring gene cytochrome c oxidase assembly protein 20 Neighboring gene predicted gene, 24919 Neighboring gene EF-hand calcium binding domain 2 Neighboring gene predicted gene, 53484

Genomic regions, transcripts, and products

Expression

  • Project title: Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables ATP binding ISO
Inferred from Sequence Orthology
more info
 
enables DNA binding ISO
Inferred from Sequence Orthology
more info
 
enables RNA binding IDA
Inferred from Direct Assay
more info
PubMed 
enables RNA binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables RNA binding ISO
Inferred from Sequence Orthology
more info
 
enables RNA polymerase II C-terminal domain binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables RNA polymerase II C-terminal domain binding IDA
Inferred from Direct Assay
more info
PubMed 
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IDA
Inferred from Direct Assay
more info
PubMed 
enables RNA polymerase II complex binding ISO
Inferred from Sequence Orthology
more info
 
enables TFIIH-class transcription factor complex binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables TFIIH-class transcription factor complex binding ISO
Inferred from Sequence Orthology
more info
 
enables actin binding ISO
Inferred from Sequence Orthology
more info
 
enables chromatin DNA binding ISO
Inferred from Sequence Orthology
more info
 
enables chromatin binding ISO
Inferred from Sequence Orthology
more info
 
enables double-stranded DNA binding ISO
Inferred from Sequence Orthology
more info
 
enables double-stranded RNA binding ISO
Inferred from Sequence Orthology
more info
 
enables identical protein binding ISO
Inferred from Sequence Orthology
more info
 
enables lncRNA binding IDA
Inferred from Direct Assay
more info
PubMed 
enables mRNA 3'-UTR binding ISO
Inferred from Sequence Orthology
more info
 
enables nucleotide binding IEA
Inferred from Electronic Annotation
more info
 
enables poly(A) binding ISO
Inferred from Sequence Orthology
more info
 
enables poly(C) RNA binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables poly(C) RNA binding ISO
Inferred from Sequence Orthology
more info
 
enables poly(G) binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables poly(G) binding ISO
Inferred from Sequence Orthology
more info
 
enables pre-mRNA binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables pre-mRNA binding ISO
Inferred from Sequence Orthology
more info
 
enables promoter-specific chromatin binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables promoter-specific chromatin binding IDA
Inferred from Direct Assay
more info
PubMed 
enables promoter-specific chromatin binding ISO
Inferred from Sequence Orthology
more info
 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables protein-containing complex binding ISO
Inferred from Sequence Orthology
more info
 
enables ribonucleoprotein complex binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables ribonucleoprotein complex binding ISO
Inferred from Sequence Orthology
more info
 
enables sequence-specific DNA binding IDA
Inferred from Direct Assay
more info
PubMed 
enables sequence-specific double-stranded DNA binding ISO
Inferred from Sequence Orthology
more info
 
enables single-stranded DNA binding ISO
Inferred from Sequence Orthology
more info
 
enables single-stranded RNA binding ISO
Inferred from Sequence Orthology
more info
 
enables snRNA binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables snRNA binding ISO
Inferred from Sequence Orthology
more info
 
enables telomerase RNA binding ISO
Inferred from Sequence Orthology
more info
 
enables transcription corepressor activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables transcription corepressor activity ISO
Inferred from Sequence Orthology
more info
 
Process Evidence Code Pubs
involved_in CRD-mediated mRNA stabilization IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in CRD-mediated mRNA stabilization ISO
Inferred from Sequence Orthology
more info
 
involved_in RNA localization to chromatin IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in RNA localization to chromatin IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within RNA splicing IEA
Inferred from Electronic Annotation
more info
 
involved_in adaptive thermogenesis IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within cardiac muscle cell development IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within cell cycle IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within cell differentiation IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within cell division IEA
Inferred from Electronic Annotation
more info
 
involved_in cellular response to dexamethasone stimulus ISO
Inferred from Sequence Orthology
more info
 
involved_in cellular response to glucocorticoid stimulus ISO
Inferred from Sequence Orthology
more info
 
involved_in cellular response to leukemia inhibitory factor IDA
Inferred from Direct Assay
more info
PubMed 
acts_upstream_of_or_within chromatin organization IEA
Inferred from Electronic Annotation
more info
 
involved_in circadian regulation of gene expression IDA
Inferred from Direct Assay
more info
PubMed 
involved_in dendritic transport of messenger ribonucleoprotein complex IDA
Inferred from Direct Assay
more info
PubMed 
involved_in dendritic transport of messenger ribonucleoprotein complex IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in dosage compensation by inactivation of X chromosome IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within_positive_effect mRNA metabolic process IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within mRNA processing IEA
Inferred from Electronic Annotation
more info
 
involved_in mRNA stabilization ISO
Inferred from Sequence Orthology
more info
 
involved_in maintenance of protein location in nucleus ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within multicellular organism development IEA
Inferred from Electronic Annotation
more info
 
involved_in negative regulation of kinase activity ISO
Inferred from Sequence Orthology
more info
 
involved_in negative regulation of nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay ISO
Inferred from Sequence Orthology
more info
 
involved_in negative regulation of stem cell differentiation IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in negative regulation of stem cell differentiation ISO
Inferred from Sequence Orthology
more info
 
involved_in negative regulation of telomere maintenance via telomerase IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in negative regulation of telomere maintenance via telomerase ISO
Inferred from Sequence Orthology
more info
 
involved_in negative regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in negative regulation of transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
 
involved_in negative regulation of transcription elongation by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of DNA topoisomerase (ATP-hydrolyzing) activity ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of attachment of mitotic spindle microtubules to kinetochore IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in positive regulation of attachment of mitotic spindle microtubules to kinetochore ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of brown fat cell differentiation IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in positive regulation of cytoplasmic translation ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of gene expression ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of stem cell proliferation IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in positive regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in positive regulation of transcription by RNA polymerase II IDA
Inferred from Direct Assay
more info
PubMed 
involved_in positive regulation of transcription by RNA polymerase II IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in positive regulation of transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
 
involved_in protein localization to spindle microtubule ISO
Inferred from Sequence Orthology
more info
 
involved_in regulation of alternative mRNA splicing, via spliceosome IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in regulation of alternative mRNA splicing, via spliceosome ISO
Inferred from Sequence Orthology
more info
 
involved_in regulation of chromatin organization IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in regulation of chromatin organization ISO
Inferred from Sequence Orthology
more info
 
involved_in regulation of mitotic cell cycle ISO
Inferred from Sequence Orthology
more info
 
involved_in regulation of mitotic spindle assembly IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in regulation of mitotic spindle assembly ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within rhythmic process IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
part_of CRD-mediated mRNA stability complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
part_of CRD-mediated mRNA stability complex ISO
Inferred from Sequence Orthology
more info
 
part_of RNA polymerase II transcription regulator complex ISO
Inferred from Sequence Orthology
more info
 
part_of catalytic step 2 spliceosome IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
part_of catalytic step 2 spliceosome ISO
Inferred from Sequence Orthology
more info
 
located_in cell surface ISO
Inferred from Sequence Orthology
more info
 
is_active_in centrosome IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in centrosome ISO
Inferred from Sequence Orthology
more info
 
located_in chromosome IEA
Inferred from Electronic Annotation
more info
 
located_in chromosome, centromeric region IEA
Inferred from Electronic Annotation
more info
 
located_in cytoplasm IEA
Inferred from Electronic Annotation
more info
 
is_active_in cytoplasmic ribonucleoprotein granule IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in cytoplasmic ribonucleoprotein granule ISO
Inferred from Sequence Orthology
more info
 
located_in cytoskeleton IEA
Inferred from Electronic Annotation
more info
 
located_in cytosol ISO
Inferred from Sequence Orthology
more info
 
located_in dendrite IDA
Inferred from Direct Assay
more info
PubMed 
located_in dendrite cytoplasm IDA
Inferred from Direct Assay
more info
PubMed 
is_active_in inactive sex chromosome IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in inactive sex chromosome IDA
Inferred from Direct Assay
more info
PubMed 
located_in inactive sex chromosome ISO
Inferred from Sequence Orthology
more info
 
is_active_in kinetochore IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in kinetochore ISO
Inferred from Sequence Orthology
more info
 
located_in midbody ISO
Inferred from Sequence Orthology
more info
 
located_in mitotic spindle ISO
Inferred from Sequence Orthology
more info
 
is_active_in mitotic spindle microtubule IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in mitotic spindle microtubule ISO
Inferred from Sequence Orthology
more info
 
is_active_in mitotic spindle midzone IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in mitotic spindle midzone ISO
Inferred from Sequence Orthology
more info
 
is_active_in nuclear chromosome IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in nuclear chromosome ISO
Inferred from Sequence Orthology
more info
 
is_active_in nuclear matrix IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in nuclear matrix ISO
Inferred from Sequence Orthology
more info
 
is_active_in nuclear speck IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in nuclear speck ISO
Inferred from Sequence Orthology
more info
 
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
 
located_in nucleus IDA
Inferred from Direct Assay
more info
PubMed 
located_in nucleus ISO
Inferred from Sequence Orthology
more info
 
part_of protein-containing complex ISO
Inferred from Sequence Orthology
more info
 
part_of ribonucleoprotein complex IDA
Inferred from Direct Assay
more info
PubMed 
part_of ribonucleoprotein complex ISO
Inferred from Sequence Orthology
more info
 
part_of spliceosomal complex IEA
Inferred from Electronic Annotation
more info
 
part_of telomerase holoenzyme complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
part_of telomerase holoenzyme complex ISO
Inferred from Sequence Orthology
more info
 

General protein information

Preferred Names
heterogeneous nuclear ribonucleoprotein U
Names
heterogenous nuclear ribonucleoprotein U
nuclear matrix protein sp120
scaffold attachment factor A

NCBI Reference Sequences (RefSeq)

NEW Try the new Transcript table

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_016805.3NP_058085.2  heterogeneous nuclear ribonucleoprotein U

    See identical proteins and their annotated locations for NP_058085.2

    Status: VALIDATED

    Source sequence(s)
    AC166710, AK049600, AK145499, AW123430, BY766801, CX567350
    Consensus CDS
    CCDS35804.1
    UniProtKB/Swiss-Prot
    Q8VEK3, Q9R205
    Related
    ENSMUSP00000047571.8, ENSMUST00000037748.9
    Conserved Domains (3) summary
    smart00513
    Location:842
    SAP; Putative DNA-binding (bihelical) motif predicted to be involved in chromosomal organisation
    cd12884
    Location:264439
    SPRY_hnRNP; SPRY domain in heterogeneous nuclear ribonucleoprotein U-like (hnRNP) protein 1
    pfam13671
    Location:475619
    AAA_33; AAA domain

RNA

  1. NR_149827.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AA168064, AC166710, AK029944, AK040295, AK153188, BE650851, BY766801

RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...Open this link in a new tab

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000067.7 Reference GRCm39 C57BL/6J

    Range
    178148673..178170063 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_036152317.1XP_036008210.1  heterogeneous nuclear ribonucleoprotein U isoform X2

    Related
    ENSMUSP00000124147.2, ENSMUST00000161769.8
    Conserved Domains (3) summary
    smart00513
    Location:842
    SAP; Putative DNA-binding (bihelical) motif predicted to be involved in chromosomal organisation
    cd12884
    Location:264439
    SPRY_hnRNP; SPRY domain in heterogeneous nuclear ribonucleoprotein U-like (hnRNP) protein 1
    pfam13671
    Location:475619
    AAA_33; AAA domain
  2. XM_036152315.1XP_036008208.1  heterogeneous nuclear ribonucleoprotein U isoform X2

    Conserved Domains (3) summary
    smart00513
    Location:842
    SAP; Putative DNA-binding (bihelical) motif predicted to be involved in chromosomal organisation
    cd12884
    Location:264439
    SPRY_hnRNP; SPRY domain in heterogeneous nuclear ribonucleoprotein U-like (hnRNP) protein 1
    pfam13671
    Location:475619
    AAA_33; AAA domain
  3. XM_036152313.1XP_036008206.1  heterogeneous nuclear ribonucleoprotein U isoform X2

    Conserved Domains (3) summary
    smart00513
    Location:842
    SAP; Putative DNA-binding (bihelical) motif predicted to be involved in chromosomal organisation
    cd12884
    Location:264439
    SPRY_hnRNP; SPRY domain in heterogeneous nuclear ribonucleoprotein U-like (hnRNP) protein 1
    pfam13671
    Location:475619
    AAA_33; AAA domain
  4. XM_036152312.1XP_036008205.1  heterogeneous nuclear ribonucleoprotein U isoform X1

    UniProtKB/Swiss-Prot
    Q9R205
    Conserved Domains (3) summary
    smart00513
    Location:842
    SAP; Putative DNA-binding (bihelical) motif predicted to be involved in chromosomal organisation
    cd12884
    Location:264439
    SPRY_hnRNP; SPRY domain in heterogeneous nuclear ribonucleoprotein U-like (hnRNP) protein 1
    pfam13671
    Location:475619
    AAA_33; AAA domain