Khsrp KH-type splicing regulatory protein [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Khsrpprovided by RGD
Official Full Name: KH-type splicing regulatory proteinprovided by RGD
Primary source: RGD:621828
See related: EnsemblRapid:ENSRNOG00000047628 AllianceGenome:RGD:621828
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: Marta1
Summary: Enables mRNA 3'-UTR binding activity. Predicted to be involved in several processes, including negative regulation of low-density lipoprotein particle clearance; negative regulation of nitric oxide biosynthetic process; and regulation of RNA metabolic process. Predicted to act upstream of or within mRNA catabolic process and regulation of miRNA metabolic process. Located in dendrite and neuronal cell body. Orthologous to human KHSRP (KH-type splicing regulatory protein). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Spleen (RPKM 83.9), Thymus (RPKM 69.0) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 9q11

Exon count:: 18

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	9	NC_086027.1 (1949557..1959400, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	9	NC_051344.1 (1862555..1872403, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	9	NC_005108.4 (10013795..10023670)

Chromosome 9 - NC_086027.1 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: 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?

KSRP modulation of GAP-43 mRNA stability restricts axonal outgrowth in embryonic hippocampal neurons.
Title: KSRP modulation of GAP-43 mRNA stability restricts axonal outgrowth in embryonic hippocampal neurons.
Authors speculated that KHSRP was involved in SCs and neuronal differentiation by inducing beta-catenin mRNA decay.
Title: Spatiotemporal expression of KHSRP modulates Schwann cells and neuronal differentiation after sciatic nerve injury.

Submit: New GeneRIF Correction

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

RH144099 (e-PCR)
- UniSTS:233345

Khsrp (e-PCR), detects polymorphism
- UniSTS:525250

NoName (e-PCR)
- UniSTS:547057

Slc25a41 (e-PCR), detects polymorphism
- UniSTS:547057

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables DNA binding	IEA Inferred from Electronic Annotation more info
enables RNA binding	IEA Inferred from Electronic Annotation more info
enables mRNA 3'-UTR AU-rich region binding	ISO Inferred from Sequence Orthology more info
enables mRNA 3'-UTR AU-rich region binding	ISS Inferred from Sequence or Structural Similarity more info
enables mRNA 3'-UTR binding	IDA Inferred from Direct Assay more info	PubMed
enables mRNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables mRNA binding	IEA Inferred from Electronic Annotation more info
enables mRNA binding	ISO Inferred from Sequence Orthology more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein folding chaperone	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in 3'-UTR-mediated mRNA destabilization	ISO Inferred from Sequence Orthology more info
involved_in 3'-UTR-mediated mRNA destabilization	ISS Inferred from Sequence or Structural Similarity more info
involved_in RNA splicing	IEA Inferred from Electronic Annotation more info
involved_in cellular response to cytokine stimulus	ISO Inferred from Sequence Orthology more info
involved_in cellular response to cytokine stimulus	ISS Inferred from Sequence or Structural Similarity more info
involved_in mRNA catabolic process	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within mRNA catabolic process	ISO Inferred from Sequence Orthology more info
involved_in mRNA processing	IEA Inferred from Electronic Annotation more info
involved_in mRNA transport	IEA Inferred from Electronic Annotation more info
involved_in miRNA metabolic process	ISO Inferred from Sequence Orthology more info
involved_in miRNA metabolic process	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of low-density lipoprotein particle clearance	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of nitric oxide biosynthetic process	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of nitric oxide biosynthetic process	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of mRNA catabolic process	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of mRNA catabolic process	ISS Inferred from Sequence or Structural Similarity more info
involved_in protein folding	IEA Inferred from Electronic Annotation more info
involved_in regulation of DNA-templated transcription	IEA Inferred from Electronic Annotation more info
involved_in regulation of mRNA stability	ISO Inferred from Sequence Orthology more info
involved_in regulation of mRNA stability	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulation of miRNA metabolic process	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within regulation of miRNA metabolic process	ISO Inferred from Sequence Orthology more info
involved_in regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
is_active_in cytoplasm	IBA Inferred from Biological aspect of Ancestor more info
located_in cytoplasmic stress granule	IEA Inferred from Electronic Annotation more info
located_in cytoplasmic stress granule	ISO Inferred from Sequence Orthology more info
located_in dendrite	IDA Inferred from Direct Assay more info	PubMed
located_in neuronal cell body	IDA Inferred from Direct Assay more info	PubMed
located_in nucleoplasm	IEA Inferred from Electronic Annotation 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	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: far upstream element-binding protein 2

Names: FUSE-binding protein 2; KSRP; MAP2 RNA trans-acting protein 1; MAP2 RNA trans-acting protein MARTA1

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_001395096.1 → NP_001382025.1 far upstream element-binding protein 2

Status: VALIDATED

Source sequence(s)

JAXUCZ010000009

UniProtKB/Swiss-Prot

Q99PF5

UniProtKB/TrEMBL

A0A0G2K2B3

Related

ENSRNOP00000072174.2, ENSRNOT00000077653.3

Conserved Domains (5) summary

pfam09005
Location:672 → 686

DUF1897; Domain of unknown function (DUF1897)

cd22479
Location:146 → 216

KH-I_FUBP2_rpt1; first type I K homology (KH) RNA-binding domain found in far upstream element-binding protein 2 (FUBP2) and similar proteins

cd22482
Location:234 → 306

KH-I_FUBP2_rpt2; second type I K homology (KH) RNA-binding domain found in far upstream element-binding protein 2 (FUBP2) and similar proteins

cd22485
Location:324 → 391

KH-I_FUBP2_rpt3; third type I K homology (KH) RNA-binding domain found in far upstream element-binding protein 2 (FUBP2) and similar proteins

cd22488
Location:427 → 495

KH-I_FUBP2_rpt4; fourth type I K homology (KH) RNA-binding domain found in far upstream element-binding protein 2 (FUBP2) and similar proteins

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

NC_086027.1 Reference GRCr8

Range

1949557..1959400 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

NM_133602.1: Suppressed sequence

Description

NM_133602.1: This RefSeq was removed because currently there is insufficient support for the transcript and the protein.