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

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: human all
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Genomic context

Location:: 1 H4; 1 83.16 cM

Exon count:: 18

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	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_000067.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

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Expression

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See details

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

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

RNA-binding protein hnRNPU regulates multiple myeloma resistance to selinexor.
Title: RNA-binding protein hnRNPU regulates multiple myeloma resistance to selinexor.
Neurodevelopmental deficits and cell-type-specific transcriptomic perturbations in a mouse model of HNRNPU haploinsufficiency.
Title: Neurodevelopmental deficits and cell-type-specific transcriptomic perturbations in a mouse model of HNRNPU haploinsufficiency.
Malat1 deficiency prevents neonatal heart regeneration by inducing cardiomyocyte binucleation.
Title: Malat1 deficiency prevents neonatal heart regeneration by inducing cardiomyocyte binucleation.
Heterogeneous nuclear ribonucleoprotein U (HNRNPU) safeguards the developing mouse cortex.
Title: Heterogeneous nuclear ribonucleoprotein U (HNRNPU) safeguards the developing mouse cortex.
hnRNPU in Sertoli cells cooperates with WT1 and is essential for testicular development by modulating transcriptional factors Sox8/9.
Title: hnRNPU in Sertoli cells cooperates with WT1 and is essential for testicular development by modulating transcriptional factors Sox8/9.
hnRNPU/TrkB Defines a Chromatin Accessibility Checkpoint for Liver Injury and Nonalcoholic Steatohepatitis Pathogenesis.
Title: hnRNPU/TrkB Defines a Chromatin Accessibility Checkpoint for Liver Injury and Nonalcoholic Steatohepatitis Pathogenesis.
we demonstrated that HNRNPU functions as a major factor maintaining 3D chromatin architecture, suggesting important roles of NM-associated proteins in genome organization.
Title: Transcription rate strongly affects splicing fidelity and cotranscriptionality in budding yeast.
We found that heterogeneous nuclear ribonucleoprotein U (hnRNP U) is essential for the expression of Avp and Vip. Loss of one copy of the Hnrnpu gene resulted in fragmented locomotor activities and disrupted metabolic rhythms. Hnrnpu(+/-) mice were more active than wild-type mice in the daytime but more inactive at night.
Title: Haploinsufficiency of hnRNP U Changes Activity Pattern and Metabolic Rhythms.
findings provide conclusive evidence for the essential role of hnRNP U in heart development and function and in the regulation of alternative splicing.
Title: hnRNP U protein is required for normal pre-mRNA splicing and postnatal heart development and function.
SAF-A interacts with BRG1 and both components are required for RNA Polymerase II Mediated Transcription
Title: SAF-A forms a complex with BRG1 and both components are required for RNA polymerase II mediated transcription.

Submit: New GeneRIF Correction See all GeneRIFs (18)

Variation

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Alleles

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

Gene trapped (1) 1 citation
Targeted (1) 1 citation
Endonuclease-mediated (3) 1 citation

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

NoName (e-PCR)
- UniSTS:546820

Hnrnpu (e-PCR), detects polymorphism
- UniSTS:546820

RH125496 (e-PCR)
- UniSTS:162314

ksks277 (e-PCR)
- UniSTS:514316

RH125549 (e-PCR)
- UniSTS:162363

HNRPU_1518 (e-PCR)
- UniSTS:277316

AW557595 (e-PCR)
- UniSTS:178527

RH136053 (e-PCR)
- UniSTS:210048

C86794 (e-PCR)
- UniSTS:207257

MARC_20677-20678:1024509130:1 (e-PCR)
- UniSTS:268469

D14S1285 (e-PCR)
- UniSTS:10169

A007A33 (e-PCR)
- UniSTS:49593

MARC_26419-26420:1036768776:5 (e-PCR)
- UniSTS:268990

WI-7584 (e-PCR)
- UniSTS:31692

WI-8450 (e-PCR)
- UniSTS:79572

RH125798 (e-PCR)
- UniSTS:162544

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	IBA Inferred from Biological aspect of Ancestor 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	IDA Inferred from Direct Assay 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	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	ISO Inferred from Sequence Orthology more info
enables poly(G) binding	ISO Inferred from Sequence Orthology more info
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
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	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	ISO Inferred from Sequence Orthology more info
enables telomerase RNA binding	ISO Inferred from Sequence Orthology more info
enables transcription corepressor activity	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in CRD-mediated mRNA stabilization	ISO Inferred from Sequence Orthology more info
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
involved_in alternative mRNA splicing, via spliceosome	IBA Inferred from Biological aspect of Ancestor more info
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	ISO Inferred from Sequence Orthology more info
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 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
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	ISO Inferred from Sequence Orthology more info
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	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	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	ISO Inferred from Sequence Orthology more info
located_in cell surface	ISO Inferred from Sequence Orthology more info
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
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	IMP Inferred from Mutant Phenotype more info	PubMed
located_in dendrite cytoplasm	IMP Inferred from Mutant Phenotype 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
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
located_in mitotic spindle microtubule	ISO Inferred from Sequence Orthology more info
located_in mitotic spindle midzone	ISO Inferred from Sequence Orthology more info
located_in nuclear chromosome	ISO Inferred from Sequence Orthology more info
located_in nuclear matrix	ISO Inferred from Sequence Orthology more info
located_in nuclear speck	ISO Inferred from Sequence Orthology more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor 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	IBA Inferred from Biological aspect of Ancestor 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	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: heterogeneous nuclear ribonucleoprotein U

Names: heterogenous nuclear ribonucleoprotein U; nuclear matrix protein sp120; scaffold attachment factor A

NCBI Reference Sequences (RefSeq)

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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)

NM_016805.3 → NP_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

G3XA10, Q8VEK3, Q9R205

UniProtKB/TrEMBL

Q3TVV6, Q3TXW2, Q3ULH5, Q8C290

Related

ENSMUSP00000047571.8, ENSMUST00000037748.9

Conserved Domains (3) summary

smart00513
Location:8 → 42

SAP; Putative DNA-binding (bihelical) motif predicted to be involved in chromosomal organisation

cd12884
Location:264 → 439

SPRY_hnRNP; SPRY domain in heterogeneous nuclear ribonucleoprotein U-like (hnRNP) protein 1

pfam13671
Location:475 → 619

AAA_33; AAA domain

RNA

NR_149827.1 RNA Sequence

Status: VALIDATED

Source sequence(s)

AA168064, AC166710, AK029944, AK040295, AK153188, BE650851, BY766801

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

NC_000067.7 Reference GRCm39 C57BL/6J

Range

178148673..178170063 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

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

UniProtKB/TrEMBL

Q3TVV6, Q3TXW2, Q3ULH5, Q8C290

Related

ENSMUSP00000124147.2, ENSMUST00000161769.8

Conserved Domains (3) summary

smart00513
Location:8 → 42

SAP; Putative DNA-binding (bihelical) motif predicted to be involved in chromosomal organisation

cd12884
Location:264 → 439

SPRY_hnRNP; SPRY domain in heterogeneous nuclear ribonucleoprotein U-like (hnRNP) protein 1

pfam13671
Location:475 → 619

AAA_33; AAA domain
XM_036152315.1 → XP_036008208.1 heterogeneous nuclear ribonucleoprotein U isoform X2

UniProtKB/TrEMBL

Q3TVV6, Q3TXW2, Q3ULH5, Q8C290

Conserved Domains (3) summary

smart00513
Location:8 → 42

SAP; Putative DNA-binding (bihelical) motif predicted to be involved in chromosomal organisation

cd12884
Location:264 → 439

SPRY_hnRNP; SPRY domain in heterogeneous nuclear ribonucleoprotein U-like (hnRNP) protein 1

pfam13671
Location:475 → 619

AAA_33; AAA domain
XM_036152313.1 → XP_036008206.1 heterogeneous nuclear ribonucleoprotein U isoform X2

UniProtKB/TrEMBL

Q3TVV6, Q3TXW2, Q3ULH5, Q8C290

Conserved Domains (3) summary

smart00513
Location:8 → 42

SAP; Putative DNA-binding (bihelical) motif predicted to be involved in chromosomal organisation

cd12884
Location:264 → 439

SPRY_hnRNP; SPRY domain in heterogeneous nuclear ribonucleoprotein U-like (hnRNP) protein 1

pfam13671
Location:475 → 619

AAA_33; AAA domain
XM_036152312.1 → XP_036008205.1 heterogeneous nuclear ribonucleoprotein U isoform X1

UniProtKB/Swiss-Prot

G3XA10, Q8VEK3, Q9R205

UniProtKB/TrEMBL

Q3TVV6, Q3TXW2, Q3ULH5, Q8C290

Conserved Domains (3) summary

smart00513
Location:8 → 42

SAP; Putative DNA-binding (bihelical) motif predicted to be involved in chromosomal organisation

cd12884
Location:264 → 439

SPRY_hnRNP; SPRY domain in heterogeneous nuclear ribonucleoprotein U-like (hnRNP) protein 1

pfam13671
Location:475 → 619

AAA_33; AAA domain