Slirp SRA stem-loop interacting RNA binding protein [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Slirpprovided by MGI
Official Full Name: SRA stem-loop interacting RNA binding proteinprovided by MGI
Primary source: MGI:MGI:1916394
See related: Ensembl:ENSMUSG00000021040 AllianceGenome:MGI:1916394
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: 1810035L17Rik
Summary: Predicted to enable mRNA 3'-UTR binding activity and poly(G) binding activity. Acts upstream of or within several processes, including flagellated sperm motility; negative regulation of mitochondrial RNA catabolic process; and spermatid development. Located in several cellular components, including acrosomal vesicle; perinuclear region of cytoplasm; and sperm flagellum. Part of ribonucleoprotein complex. Is expressed in ovary and seminiferous cord. Orthologous to human SLIRP (SRA stem-loop interacting RNA binding protein). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Ubiquitous expression in placenta adult (RPKM 41.2), liver E14 (RPKM 38.2) and 23 other tissues See more
Orthologs: human all
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Genomic context

Location:: 12 D2; 12 41.67 cM

Exon count:: 4

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	12	NC_000078.7 (87490666..87496694)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	12	NC_000078.6 (87443896..87449924)

Chromosome 12 - NC_000078.7 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: 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?

Study demonstrated that the LRPPRC-SLIRP complex is a global RNA chaperone that stabilizes RNA structures to expose the required sites for translation, stabilization, and polyadenylation.
Title: LRPPRC-mediated folding of the mitochondrial transcriptome.
both LRPPRC and SLIRP are required for maintaining mt-mRNA steady-state levels independent of their roles in stabilizing the other partner of the LRPPRC-SLIRP complex.
Title: SLIRP Regulates the Rate of Mitochondrial Protein Synthesis and Protects LRPPRC from Degradation.
SLIRP regulates male fertility, wherein its loss results in asthenozoospermia associated with compromised sperm structure and mitochondrial morphology.
Title: Loss of the nuclear receptor corepressor SLIRP compromises male fertility.
SLIRP plays an essential role in maintaining mitochondrial-localized mRNA transcripts that encode OxPhos protein subunits.
Title: A computational screen for regulators of oxidative phosphorylation implicates SLIRP in mitochondrial RNA homeostasis.

Submit: New GeneRIF Correction

Variation

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Alleles

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

Targeted (4) 1 citation

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

D19242 (e-PCR)
- UniSTS:124795

AW048543 (e-PCR)
- UniSTS:165831

NoName (e-PCR)
- UniSTS:492009

NoName (e-PCR)
- UniSTS:492280

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables RNA binding	IEA Inferred from Electronic Annotation more info
enables mRNA 3'-UTR binding	IBA Inferred from Biological aspect of Ancestor more info
enables poly(G) binding	IBA Inferred from Biological aspect of Ancestor more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within flagellated sperm motility	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within mitochondrion organization	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within negative regulation of mitochondrial RNA catabolic process	IGI Inferred from Genetic Interaction more info	PubMed
involved_in positive regulation of mRNA splicing, via spliceosome	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within single fertilization	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within spermatid development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in spermatogenesis	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
located_in acrosomal vesicle	IDA Inferred from Direct Assay more info	PubMed
located_in cytoplasm	IDA Inferred from Direct Assay more info	PubMed
located_in mitochondrial matrix	IEA Inferred from Electronic Annotation more info
located_in mitochondrion	HDA more info	PubMed
located_in mitochondrion	IDA Inferred from Direct Assay more info	PubMed
located_in mitochondrion	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
located_in perinuclear region of cytoplasm	IDA Inferred from Direct Assay more info	PubMed
part_of ribonucleoprotein complex	IDA Inferred from Direct Assay more info	PubMed
located_in sperm flagellum	IDA Inferred from Direct Assay more info	PubMed

General protein information

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Preferred Names: SRA stem-loop-interacting RNA-binding protein, mitochondrial

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_026958.3 → NP_081234.2 SRA stem-loop-interacting RNA-binding protein, mitochondrial

See identical proteins and their annotated locations for NP_081234.2

Status: VALIDATED

Source sequence(s)

BC116741, BU850988, CK372908

Consensus CDS

CCDS36503.1

UniProtKB/Swiss-Prot

Q497G4, Q99JH3, Q9D8T7

UniProtKB/TrEMBL

F8WHU8, Q14AR0

Related

ENSMUSP00000125341.2, ENSMUST00000161023.8

Conserved Domains (2) summary

COG0724
Location:22 → 92

RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]

cd12242
Location:21 → 92

RRM_SLIRP; RNA recognition motif found in SRA stem-loop-interacting RNA-binding protein (SLIRP) and similar proteins