Lsm14a LSM14A mRNA processing body assembly factor [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Lsm14aprovided by MGI
Official Full Name: LSM14A mRNA processing body assembly factorprovided by MGI
Primary source: MGI:MGI:1914320
See related: Ensembl:ENSMUSG00000066568 AllianceGenome:MGI:1914320
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: Tral; mRAP55A; 2700023B17Rik
Summary: Enables double-stranded DNA binding activity; double-stranded RNA binding activity; and single-stranded RNA binding activity. Acts upstream of or within RIG-I signaling pathway and positive regulation of type I interferon-mediated signaling pathway. Located in P-body. Is expressed in several structures, including gonad. Orthologous to human LSM14A (LSM14A mRNA processing body assembly factor). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Ubiquitous expression in CNS E11.5 (RPKM 24.1), limb E14.5 (RPKM 17.8) and 28 other tissues See more
Orthologs: human all
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Genomic context

Location:: 7 B1; 7 19.56 cM

Exon count:: 12

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	7	NC_000073.7 (34043569..34089134, complement)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	7	NC_000073.6 (34344144..34390026, complement)

Chromosome 7 - NC_000073.7 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?

results suggest that LSm14A plays an important role in antiviral innate and adaptive immune responses by modulating MITA level in a cell type-specific manner
Title: LSm14A Plays a Critical Role in Antiviral Immune Responses by Regulating MITA Level in a Cell-Specific Manner.

Submit: New GeneRIF Correction

Variation

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Alleles

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

Endonuclease-mediated (3)
Targeted (2)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

BMON117 (e-PCR), detects polymorphism
- UniSTS:251706

AU017544 (e-PCR)
- UniSTS:179553

RH126245 (e-PCR)
- UniSTS:162953

RH124637 (e-PCR)
- UniSTS:161459

RH125733 (e-PCR)
- UniSTS:162491

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables RNA binding	IEA Inferred from Electronic Annotation more info
enables double-stranded DNA binding	IDA Inferred from Direct Assay more info	PubMed
enables double-stranded RNA binding	IDA Inferred from Direct Assay more info	PubMed
enables mRNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables single-stranded RNA binding	IDA Inferred from Direct Assay more info	PubMed

Process	Evidence Code	Pubs
involved_in P-body assembly	IBA Inferred from Biological aspect of Ancestor more info
involved_in P-body assembly	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within RIG-I signaling pathway	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within defense response to virus	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in mitotic spindle assembly	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 translation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within positive regulation of type I interferon-mediated signaling pathway	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within regulation of translation	IEA Inferred from Electronic Annotation more info
involved_in stress granule assembly	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
is_active_in P-body	IBA Inferred from Biological aspect of Ancestor more info
located_in P-body	IDA Inferred from Direct Assay more info	PubMed
located_in P-body	ISO Inferred from Sequence Orthology more info
located_in cytoplasm	IDA Inferred from Direct Assay more info	PubMed
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in cytoplasmic ribonucleoprotein granule	ISO Inferred from Sequence Orthology more info
located_in cytoplasmic stress 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 mitotic spindle	ISO Inferred from Sequence Orthology more info
part_of ribonucleoprotein complex	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: protein LSM14 homolog A

Names: LSM14 homolog A; RNA-associated protein 55A

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_001360654.1 → NP_001347583.1 protein LSM14 homolog A isoform 2

Status: VALIDATED

Description

Transcript Variant: This variant (2) lacks an alternate exon in the 3' end compared to variant 1. The resulting isoform (2) is the same length but has a distinct C-terminus compared to isoform 1.

Source sequence(s)

BX537302, BX539342

Conserved Domains (2) summary

cd01736
Location:4 → 77

LSm14_N; Like-Sm protein 14, N-terminal domain

pfam09532
Location:290 → 398

FDF; FDF domain
NM_001360655.1 → NP_001347584.1 protein LSM14 homolog A isoform 3

Status: VALIDATED

Description

Transcript Variant: This variant (3) uses an alternate in-frame splice junction compared to variant 1. The resulting isoform (3) has the same N- and C-termini but is 1 aa shorter compared to isoform 1.

Source sequence(s)

BX537302, BX539342

Conserved Domains (2) summary

cd01736
Location:4 → 77

LSm14_N; Like-Sm protein 14, N-terminal domain

pfam09532
Location:290 → 397

FDF; FDF domain
NM_001360656.1 → NP_001347585.1 protein LSM14 homolog A isoform 4

Status: VALIDATED

Description

Transcript Variant: This variant (4) lacks an alternate in-frame exon compared to variant 1. The resulting isoform (4) has the same N- and C-termini but is shorter compared to isoform 1.

Source sequence(s)

BX537302, BX539342

Conserved Domains (2) summary

cd01736
Location:4 → 77

LSm14_N; Like-Sm protein 14, N-terminal domain

pfam09532
Location:231 → 339

FDF; FDF domain
NM_025948.3 → NP_080224.1 protein LSM14 homolog A isoform 1

See identical proteins and their annotated locations for NP_080224.1

Status: VALIDATED

Description

Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).

Source sequence(s)

BX537302, BX539342

Consensus CDS

CCDS21140.1

UniProtKB/Swiss-Prot

Q8K2F8, Q9CTG8

Related

ENSMUSP00000082723.6, ENSMUST00000085585.12

Conserved Domains (2) summary

cd01736
Location:4 → 77

LSm14_N; Like-Sm protein 14, N-terminal domain

pfam09532
Location:290 → 398

FDF; FDF domain

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_000073.7 Reference GRCm39 C57BL/6J

Range

34043569..34089134 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_030242918.2 → XP_030098778.1 protein LSM14 homolog A isoform X1

Conserved Domains (2) summary

cd01736
Location:4 → 77

LSm14_N; Like-Sm protein 14, N-terminal domain

pfam09532
Location:290 → 397

FDF; FDF domain
XM_017312254.3 → XP_017167743.1 protein LSM14 homolog A isoform X3

Conserved Domains (2) summary

cd01736
Location:4 → 77

LSm14_N; Like-Sm protein 14, N-terminal domain

pfam09532
Location:231 → 339

FDF; FDF domain
XM_036153375.1 → XP_036009268.1 protein LSM14 homolog A isoform X4

Conserved Domains (2) summary

cd01736
Location:4 → 77

LSm14_N; Like-Sm protein 14, N-terminal domain

pfam09532
Location:231 → 338

FDF; FDF domain
XM_011250679.4 → XP_011248981.1 protein LSM14 homolog A isoform X2

Conserved Domains (2) summary

pfam09532
Location:254 → 362

FDF; FDF domain

cl00259
Location:4 → 41

Sm_like; Sm and related proteins
XM_011250681.4 → XP_011248983.1 protein LSM14 homolog A isoform X5

Conserved Domains (2) summary

pfam09532
Location:195 → 303

FDF; FDF domain

cl00259
Location:4 → 41

Sm_like; Sm and related proteins