Hnrnpu heterogeneous nuclear ribonucleoprotein U [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Hnrnpuprovided by RGD
Official Full Name: heterogeneous nuclear ribonucleoprotein Uprovided by RGD
Primary source: RGD:620372
See related: Ensembl:ENSRNOG00000033790 AllianceGenome:RGD:620372
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: SN1; Hnrpu; SAF-A; SP120; hnRNP U
Summary: Enables poly(G) binding activity; promoter-specific chromatin binding activity; and ribonucleoprotein complex binding activity. Involved in cellular response to dexamethasone stimulus; positive regulation of DNA topoisomerase (ATP-hydrolyzing) activity; and positive regulation of gene expression. Located in nucleus. Part of ribonucleoprotein complex. 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: Biased expression in Thymus (RPKM 605.3), Spleen (RPKM 497.7) and 9 other tissues See more
Orthologs: human mouse all
NEW: Try the new Gene table
Try the new Transcript table

Genomic context

Location:: 13q25

Exon count:: 14

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	13	NC_086031.1 (92609791..92618580, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	13	NC_051348.1 (90069058..90086905, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	13	NC_005112.4 (96222093..96238845, complement)

Chromosome 13 - NC_086031.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

Go to the top of the page Help

Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

Go to the top of the page Help

See details

Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

Go to the top of the page Help

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Selective DNA-binding of SP120 (rat ortholog of human hnRNP U) is mediated by arginine-glycine rich domain and modulated by RNA.
Title: Selective DNA-binding of SP120 (rat ortholog of human hnRNP U) is mediated by arginine-glycine rich domain and modulated by RNA.
MicroRNA-132-3p alleviates neuron apoptosis and impairments of learning and memory abilities in Alzheimer's disease by downregulation of HNRNPU stabilized BACE1.
Title: MicroRNA-132-3p alleviates neuron apoptosis and impairments of learning and memory abilities in Alzheimer's disease by downregulation of HNRNPU stabilized BACE1.
hnRNP U/SAF-A/SP120 regulates the enzyme DNA Topoisomerase IIbeta in dual ways
Title: Regulation of DNA Topoisomerase IIbeta through RNA-dependent association with heterogeneous nuclear ribonucleoprotein U (hnRNP U).
expression of SN1 is highly regulated, correlating with the demand for glutamine during the critical period of development.
Title: Highly differential expression of SN1, a bidirectional glutamine transporter, in astroglia and endothelium in the developing rat brain.

Submit: New GeneRIF Correction

Interactions

Go to the top of the page Help

Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

Go to the top of the page Help

Markers

NoName (e-PCR)
- UniSTS:546820

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

ksks277 (e-PCR)
- UniSTS:514316

HNRPU_1518 (e-PCR)
- UniSTS:277316

C86794 (e-PCR)
- UniSTS:207257

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

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

RH135335 (e-PCR)
- UniSTS:218612

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables ATP binding	IEA Inferred from Electronic Annotation more info
enables ATP binding	ISO Inferred from Sequence Orthology more info
enables ATP binding	ISS Inferred from Sequence or Structural Similarity 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	ISO Inferred from Sequence Orthology more info
enables RNA polymerase II C-terminal domain binding	ISO Inferred from Sequence Orthology more info
enables RNA polymerase II C-terminal domain binding	ISS Inferred from Sequence or Structural Similarity more info
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding	ISO Inferred from Sequence Orthology more info
enables RNA polymerase II complex binding	ISO Inferred from Sequence Orthology more info
enables TFIIH-class transcription factor complex binding	IEA Inferred from Electronic Annotation more info
enables TFIIH-class transcription factor complex binding	ISO Inferred from Sequence Orthology more info
enables actin binding	IEA Inferred from Electronic Annotation more info
enables actin binding	ISO Inferred from Sequence Orthology more info
enables chromatin DNA binding	IEA Inferred from Electronic Annotation more info
enables chromatin DNA binding	ISO Inferred from Sequence Orthology more info
enables chromatin binding	ISO Inferred from Sequence Orthology more info
enables chromatin binding	ISS Inferred from Sequence or Structural Similarity more info
enables double-stranded DNA binding	ISO Inferred from Sequence Orthology more info
enables double-stranded RNA binding	IEA Inferred from Electronic Annotation more info
enables double-stranded RNA binding	ISO Inferred from Sequence Orthology more info
enables identical protein binding	IEA Inferred from Electronic Annotation more info
enables identical protein binding	ISO Inferred from Sequence Orthology more info
enables identical protein binding	ISS Inferred from Sequence or Structural Similarity more info
enables lncRNA binding	ISO Inferred from Sequence Orthology more info
enables mRNA 3'-UTR binding	IEA Inferred from Electronic Annotation more info
enables mRNA 3'-UTR binding	ISO Inferred from Sequence Orthology more info
enables poly(A) binding	IEA Inferred from Electronic Annotation more info
enables poly(A) binding	ISO Inferred from Sequence Orthology more info
enables poly(C) RNA binding	IEA Inferred from Electronic Annotation more info
enables poly(C) RNA binding	ISO Inferred from Sequence Orthology more info
enables poly(G) binding	IDA Inferred from Direct Assay more info	PubMed
enables poly(G) binding	IEA Inferred from Electronic Annotation more info
enables poly(G) binding	ISO Inferred from Sequence Orthology more info
enables pre-mRNA binding	IEA Inferred from Electronic Annotation 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 promoter-specific chromatin binding	ISS Inferred from Sequence or Structural Similarity 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	IEA Inferred from Electronic Annotation more info
enables ribonucleoprotein complex binding	IPI Inferred from Physical Interaction more info	PubMed
enables ribonucleoprotein complex binding	ISO Inferred from Sequence Orthology more info
enables sequence-specific DNA binding	ISO Inferred from Sequence Orthology more info
enables sequence-specific DNA binding	ISS Inferred from Sequence or Structural Similarity more info
enables sequence-specific double-stranded DNA binding	ISO Inferred from Sequence Orthology more info
enables single-stranded DNA binding	IEA Inferred from Electronic Annotation 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	IEA Inferred from Electronic Annotation more info
enables snRNA binding	ISO Inferred from Sequence Orthology more info
enables telomerase RNA binding	IEA Inferred from Electronic Annotation more info
enables telomerase RNA binding	ISO Inferred from Sequence Orthology more info
enables transcription corepressor activity	IEA Inferred from Electronic Annotation more info
enables transcription corepressor activity	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in CRD-mediated mRNA stabilization	IEA Inferred from Electronic Annotation more info
involved_in CRD-mediated mRNA stabilization	ISO Inferred from Sequence Orthology more info
involved_in RNA localization to chromatin	ISO Inferred from Sequence Orthology more info
involved_in RNA splicing	IEA Inferred from Electronic Annotation more info
involved_in adaptive thermogenesis	ISO Inferred from Sequence Orthology more info
involved_in adaptive thermogenesis	ISS Inferred from Sequence or Structural Similarity more info
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	ISO Inferred from Sequence Orthology more info
involved_in cell division	IEA Inferred from Electronic Annotation more info
involved_in cellular response to dexamethasone stimulus	IDA Inferred from Direct Assay more info	PubMed
involved_in cellular response to glucocorticoid stimulus	IEA Inferred from Electronic Annotation more info
involved_in cellular response to glucocorticoid stimulus	ISO Inferred from Sequence Orthology more info
involved_in cellular response to leukemia inhibitory factor	ISO Inferred from Sequence Orthology more info
involved_in cellular response to leukemia inhibitory factor	ISS Inferred from Sequence or Structural Similarity more info
involved_in circadian regulation of gene expression	ISO Inferred from Sequence Orthology more info
involved_in dendritic transport of messenger ribonucleoprotein complex	ISO Inferred from Sequence Orthology more info
involved_in dosage compensation by inactivation of X chromosome	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within_positive_effect mRNA metabolic process	ISO Inferred from Sequence Orthology more info
involved_in 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	IEA Inferred from Electronic Annotation more info
involved_in maintenance of protein location in nucleus	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay	IEA Inferred from Electronic Annotation 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	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of stem cell differentiation	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of stem cell differentiation	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of telomere maintenance via telomerase	IEA Inferred from Electronic Annotation 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	IEA Inferred from Electronic Annotation 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	IEA Inferred from Electronic Annotation 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	IEA Inferred from Electronic Annotation 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 attachment of mitotic spindle microtubules to kinetochore	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of brown fat cell differentiation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of brown fat cell differentiation	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of cytoplasmic translation	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of cytoplasmic translation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of gene expression	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of stem cell proliferation	ISO Inferred from Sequence Orthology more info
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	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of transcription by RNA polymerase II	ISS Inferred from Sequence or Structural Similarity more info
involved_in protein localization to spindle microtubule	IEA Inferred from Electronic Annotation more info
involved_in protein localization to spindle microtubule	ISO Inferred from Sequence Orthology more info
involved_in protein localization to spindle microtubule	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulation of alternative mRNA splicing, via spliceosome	IEA Inferred from Electronic Annotation more info
involved_in regulation of alternative mRNA splicing, via spliceosome	ISO Inferred from Sequence Orthology more info
involved_in regulation of chromatin organization	IEA Inferred from Electronic Annotation more info
involved_in regulation of chromatin organization	ISO Inferred from Sequence Orthology more info
involved_in regulation of chromatin organization	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulation of mitotic cell cycle	IEA Inferred from Electronic Annotation more info
involved_in regulation of mitotic cell cycle	ISO Inferred from Sequence Orthology more info
involved_in regulation of mitotic cell cycle	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulation of mitotic spindle assembly	IEA Inferred from Electronic Annotation more info
involved_in regulation of mitotic spindle assembly	ISO Inferred from Sequence Orthology more info
involved_in regulation of mitotic spindle assembly	ISS Inferred from Sequence or Structural Similarity more info

Component	Evidence Code	Pubs
part_of CRD-mediated mRNA stability complex	IEA Inferred from Electronic Annotation more info
part_of CRD-mediated mRNA stability complex	ISO Inferred from Sequence Orthology more info
part_of RNA polymerase II transcription regulator complex	IEA Inferred from Electronic Annotation more info
part_of RNA polymerase II transcription regulator complex	ISO Inferred from Sequence Orthology more info
part_of catalytic step 2 spliceosome	IEA Inferred from Electronic Annotation more info
part_of catalytic step 2 spliceosome	ISO Inferred from Sequence Orthology more info
located_in cell surface	IEA Inferred from Electronic Annotation more info
located_in cell surface	ISO Inferred from Sequence Orthology more info
located_in centrosome	IEA Inferred from Electronic Annotation more info
located_in centrosome	ISO Inferred from Sequence Orthology more info
located_in centrosome	ISS Inferred from Sequence or Structural Similarity more info
located_in cytoplasmic ribonucleoprotein granule	IEA Inferred from Electronic Annotation more info
located_in cytoplasmic ribonucleoprotein granule	ISO Inferred from Sequence Orthology more info
located_in cytosol	IEA Inferred from Electronic Annotation more info
located_in cytosol	ISO Inferred from Sequence Orthology more info
located_in dendrite	ISO Inferred from Sequence Orthology more info
located_in dendrite cytoplasm	ISO Inferred from Sequence Orthology more info
located_in inactive sex chromosome	IEA Inferred from Electronic Annotation more info
located_in inactive sex chromosome	ISO Inferred from Sequence Orthology more info
located_in kinetochore	IEA Inferred from Electronic Annotation more info
located_in kinetochore	ISO Inferred from Sequence Orthology more info
located_in kinetochore	ISS Inferred from Sequence or Structural Similarity more info
located_in midbody	IEA Inferred from Electronic Annotation more info
located_in midbody	ISO Inferred from Sequence Orthology more info
located_in midbody	ISS Inferred from Sequence or Structural Similarity more info
located_in mitotic spindle	ISO Inferred from Sequence Orthology more info
located_in mitotic spindle	ISS Inferred from Sequence or Structural Similarity more info
located_in mitotic spindle microtubule	IEA Inferred from Electronic Annotation more info
located_in mitotic spindle microtubule	ISO Inferred from Sequence Orthology more info
located_in mitotic spindle microtubule	ISS Inferred from Sequence or Structural Similarity more info
located_in mitotic spindle midzone	IEA Inferred from Electronic Annotation more info
located_in mitotic spindle midzone	ISO Inferred from Sequence Orthology more info
located_in mitotic spindle midzone	ISS Inferred from Sequence or Structural Similarity more info
located_in nuclear chromosome	IEA Inferred from Electronic Annotation more info
located_in nuclear chromosome	ISO Inferred from Sequence Orthology more info
located_in nuclear matrix	IEA Inferred from Electronic Annotation more info
located_in nuclear matrix	ISO Inferred from Sequence Orthology more info
located_in nuclear speck	IEA Inferred from Electronic Annotation 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	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
located_in spindle pole	IEA Inferred from Electronic Annotation more info
part_of telomerase holoenzyme complex	IEA Inferred from Electronic Annotation more info
part_of telomerase holoenzyme complex	ISO Inferred from Sequence Orthology more info

General protein information

Go to the top of the page Help

Preferred Names: heterogeneous nuclear ribonucleoprotein U

Names: scaffold-attachment factor A; system N1 Na+ and H+-coupled glutamine transporter; transporter protein; transporter protein; system N1 Na+ and H+-coupled glutamine transporter

NCBI Reference Sequences (RefSeq)

Go to the top of the page Help

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)

NM_057139.2 → NP_476480.2 heterogeneous nuclear ribonucleoprotein U

See identical proteins and their annotated locations for NP_476480.2

Status: PROVISIONAL

Source sequence(s)

BC072529

UniProtKB/Swiss-Prot

Q6IMY8

UniProtKB/TrEMBL

Q63555

Related

ENSRNOP00000046783.3, ENSRNOT00000044477.4

Conserved Domains (3) summary

smart00513
Location:8 → 42

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

cd12884
Location:262 → 437

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

pfam13671
Location:473 → 617

AAA_33; AAA domain