Hnrnpd heterogeneous nuclear ribonucleoprotein D [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Hnrnpdprovided by RGD
Official Full Name: heterogeneous nuclear ribonucleoprotein Dprovided by RGD
Primary source: RGD:620365
See related: Ensembl:ENSRNOG00000002292 AllianceGenome:RGD:620365
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: Auf1; Hnrpd
Summary: Enables chromatin binding activity; histone deacetylase binding activity; and nucleic acid binding activity. Involved in several processes, including cellular response to estradiol stimulus; cellular response to organonitrogen compound; and regulation of mRNA stability. Located in cytosol and nucleus. Used to study uremia. Biomarker of hepatocellular carcinoma. Orthologous to human HNRNPD (heterogeneous nuclear ribonucleoprotein D). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Thymus (RPKM 207.5), Spleen (RPKM 202.0) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 14p22

Exon count:: 10

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	14	NC_086032.1 (9918630..9938072)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	14	NC_051349.1 (9615375..9638975)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	14	NC_005113.4 (11256163..11274684)

Chromosome 14 - NC_086032.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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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

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

AUF1 might be a potential player in renal tubulointerstitial fibrosis through modulation of TGF-beta signal transduction via posttranscriptional regulation of Nedd4L.
Title: AUF1 modulates TGF-β signal in renal tubular epithelial cells via post-transcriptional regulation of Nedd4L expression.
Data support a role for AUF1 and HuR/methyl-HuR in liver de-differentiation and development through the posttranslational regulation of MAT1A and MAT2A mRNAs.
Title: HuR/methyl-HuR and AUF1 regulate the MAT expressed during liver proliferation, differentiation, and carcinogenesis.
findings indicated a specific developmental pattern of expression of Auf1 in the postnatal cerebellum
Title: AUF1 and Hu proteins in the developing rat brain: implication in the proliferation and differentiation of neural progenitors.
Ang II acts via AT(1) receptors, NADPH oxidase and p38 MAP kinase to upregulate AUF1, which in turn binds to an ARE in the Kv4.3 3'UTR to destabilize the channel mRNA
Title: AUF1 is upregulated by angiotensin II to destabilize cardiac Kv4.3 channel mRNA.
studies indicated that stimulation of the NMDA receptor induces a downregulation in AUF1 levels stabilising the alpha2 mRNA transcripts.
Title: NMDA induces post-transcriptional regulation of alpha2-guanylyl-cyclase-subunit expression in cerebellar granule cells.
These data suggest that the phosphorylation, binding, and location of AUF1 affect the posttranscriptional regulation of the SERCA2a message in NRVM.
Title: Phosphorylation and binding of AUF1 to the 3'-untranslated region of cardiomyocyte SERCA2a mRNA.
calcineurin regulates AUF1 posttranslationally in vitro and PTH gene expression in vivo but still allows its physiological regulation by calcium and phosphate
Title: The protein phosphatase calcineurin determines basal parathyroid hormone gene expression.
p38 MAPK activation and phorbol ester upregulated AUF1 expression in cultured cardiac cells.
Title: JNK activation decreases PP2A regulatory subunit B56alpha expression and mRNA stability and increases AUF1 expression in cardiomyocytes.
in the developing brain AUF1 bound to AT-rich double-stranded DNA can be involved in complex nuclear regulatory mechanisms controlling the development- and cell-specific expression of the ENK gene
Title: AUF1 is expressed in the developing brain, binds to AT-rich double-stranded DNA, and regulates enkephalin gene expression.
Auf1 may mediate the rapid turnover of the glutaminase mRNA, whereas increased binding of zeta-crystallin during acidosis mayinhibit stabilization.
Title: Role of deadenylation and AUF1 binding in the pH-responsive stabilization of glutaminase mRNA.

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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

Hnrnpd (e-PCR), detects polymorphism
- UniSTS:516706

Hnrpd (e-PCR), detects polymorphism
- UniSTS:479121

RH136938 (e-PCR)
- UniSTS:219027

MARC_23646-23647:1029444341:1 (e-PCR)
- UniSTS:268733

MARC_23650-23651:1029445581:1 (e-PCR)
- UniSTS:268735

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables RNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables RNA binding	ISO Inferred from Sequence Orthology more info
enables RNA binding	ISS Inferred from Sequence or Structural Similarity more info
enables chromatin binding	IDA Inferred from Direct Assay more info	PubMed
enables histone deacetylase binding	IPI Inferred from Physical Interaction more info	PubMed
enables mRNA 3'-UTR AU-rich region binding	IDA Inferred from Direct Assay more info	PubMed
enables mRNA binding	IDA Inferred from Direct Assay more info	PubMed
enables mRNA binding	TAS Traceable Author Statement more info	PubMed
enables minor groove of adenine-thymine-rich DNA binding	IDA Inferred from Direct Assay more info	PubMed
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables telomeric DNA binding	ISO Inferred from Sequence Orthology more info
enables telomeric DNA binding	ISS Inferred from Sequence or Structural Similarity more info

Process	Evidence Code	Pubs
involved_in 3'-UTR-mediated mRNA destabilization	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in CRD-mediated mRNA stabilization	ISO Inferred from Sequence Orthology more info
involved_in cellular response to amino acid stimulus	IEP Inferred from Expression Pattern more info	PubMed
involved_in cellular response to estradiol stimulus	IEP Inferred from Expression Pattern more info	PubMed
involved_in cellular response to nitric oxide	IDA Inferred from Direct Assay more info	PubMed
involved_in cellular response to putrescine	IDA Inferred from Direct Assay more info	PubMed
involved_in cerebellum development	IEP Inferred from Expression Pattern more info	PubMed
involved_in circadian regulation of translation	ISO Inferred from Sequence Orthology more info
involved_in circadian regulation of translation	ISS Inferred from Sequence or Structural Similarity more info
involved_in hepatocyte dedifferentiation	IEP Inferred from Expression Pattern more info	PubMed
involved_in liver development	IEP Inferred from Expression Pattern more info	PubMed
involved_in mRNA transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of gene expression	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay	ISO Inferred from Sequence Orthology 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 telomere capping	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of translation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of translation	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulation of circadian rhythm	ISO Inferred from Sequence Orthology more info
involved_in regulation of circadian rhythm	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulation of gene expression	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within regulation of mRNA stability	ISO Inferred from Sequence Orthology more info
involved_in regulation of telomere maintenance	ISO Inferred from Sequence Orthology more info
involved_in response to calcium ion	IDA Inferred from Direct Assay more info	PubMed
involved_in response to electrical stimulus	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to estradiol	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to rapamycin	IDA Inferred from Direct Assay more info	PubMed
involved_in response to sodium phosphate	IDA Inferred from Direct Assay more info	PubMed
involved_in response to xenobiotic stimulus	IEP Inferred from Expression Pattern more info

Component	Evidence Code	Pubs
part_of chromatin	IBA Inferred from Biological aspect of Ancestor more info
located_in cytosol	ISO Inferred from Sequence Orthology more info
is_active_in glutamatergic synapse	EXP Inferred from Experiment more info	PubMed
is_active_in glutamatergic synapse	IDA Inferred from Direct Assay more info	PubMed
part_of mCRD-mediated mRNA stability complex	ISO Inferred from Sequence Orthology more info
is_active_in nucleoplasm	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
is_active_in postsynaptic density	EXP Inferred from Experiment more info	PubMed
is_active_in postsynaptic density	IDA Inferred from Direct Assay more info	PubMed
part_of ribonucleoprotein complex	ISO Inferred from Sequence Orthology more info
part_of ribonucleoprotein complex	ISS Inferred from Sequence or Structural Similarity more info
is_active_in synapse	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: heterogeneous nuclear ribonucleoprotein D0

Names: AU-rich element RNA-binding factor 1; AU-rich element RNA-binding protein 1; RNA binding protein p45AUF1; hnRNP D0

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_001082539.1 → NP_001076008.1 heterogeneous nuclear ribonucleoprotein D0 isoform b

See identical proteins and their annotated locations for NP_001076008.1

Status: VALIDATED

Source sequence(s)

AB046616, CB798484, CO560068

UniProtKB/TrEMBL

A6K623

Related

ENSRNOP00000003173.4, ENSRNOT00000003173.8

Conserved Domains (3) summary

cd12575
Location:78 → 151

RRM1_hnRNPD_like; RNA recognition motif 1 in heterogeneous nuclear ribonucleoprotein hnRNP D0, hnRNP A/B, hnRNP DL and similar proteins

cd12583
Location:162 → 236

RRM2_hnRNPD; RNA recognition motif 2 in heterogeneous nuclear ribonucleoprotein D0 (hnRNP D0) and similar proteins

pfam08143
Location:55 → 76

CBFNT; CBFNT (NUC161) domain
NM_001082540.1 → NP_001076009.1 heterogeneous nuclear ribonucleoprotein D0 isoform c

See identical proteins and their annotated locations for NP_001076009.1

Status: VALIDATED

Source sequence(s)

AB046617, CB798484, CO567918

UniProtKB/TrEMBL

A6K622

Related

ENSRNOP00000003158.4, ENSRNOT00000003158.7

Conserved Domains (3) summary

cd12575
Location:97 → 170

RRM1_hnRNPD_like; RNA recognition motif 1 in heterogeneous nuclear ribonucleoprotein hnRNP D0, hnRNP A/B, hnRNP DL and similar proteins

cd12583
Location:181 → 255

RRM2_hnRNPD; RNA recognition motif 2 in heterogeneous nuclear ribonucleoprotein D0 (hnRNP D0) and similar proteins

pfam08143
Location:55 → 76

CBFNT; CBFNT (NUC161) domain
NM_001082541.1 → NP_001076010.1 heterogeneous nuclear ribonucleoprotein D0 isoform d

See identical proteins and their annotated locations for NP_001076010.1

Status: VALIDATED

Source sequence(s)

AB046618, CB798484, CO560068

UniProtKB/TrEMBL

A6K625

Conserved Domains (3) summary

cd12575
Location:78 → 151

RRM1_hnRNPD_like; RNA recognition motif 1 in heterogeneous nuclear ribonucleoprotein hnRNP D0, hnRNP A/B, hnRNP DL and similar proteins

cd12583
Location:162 → 236

RRM2_hnRNPD; RNA recognition motif 2 in heterogeneous nuclear ribonucleoprotein D0 (hnRNP D0) and similar proteins

pfam08143
Location:55 → 76

CBFNT; CBFNT (NUC161) domain
NM_024404.2 → NP_077380.2 heterogeneous nuclear ribonucleoprotein D0 isoform a

See identical proteins and their annotated locations for NP_077380.2

Status: VALIDATED

Source sequence(s)

AB046615, CB798484, CO567918

UniProtKB/Swiss-Prot

G3V9G2, P17132, Q9JJ51, Q9JJ52, Q9JJ53, Q9JJ54

Related

ENSRNOP00000046491.2, ENSRNOT00000047840.6

Conserved Domains (3) summary

cd12575
Location:97 → 170

RRM1_hnRNPD_like; RNA recognition motif 1 in heterogeneous nuclear ribonucleoprotein hnRNP D0, hnRNP A/B, hnRNP DL and similar proteins

cd12583
Location:181 → 255

RRM2_hnRNPD; RNA recognition motif 2 in heterogeneous nuclear ribonucleoprotein D0 (hnRNP D0) and similar proteins

pfam08143
Location:55 → 76

CBFNT; CBFNT (NUC161) domain