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

Gene ID: 67070, updated on 26-Sep-2022

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
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Genomic context

See Lsm14a in Genome Data Viewer
Location:
7; 7 B1
Exon count:
12
Annotation release Status Assembly Chr Location
109 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_000073.7Genomic Context describing neighboring genes Neighboring gene predicted gene 12758 Neighboring gene granule associated Rac and RHOG effector 1 Neighboring gene VISTA enhancer mm1379 Neighboring gene 39S ribosomal protein L27, mitochondrial pseudogene Neighboring gene predicted gene 12764 Neighboring gene predicted gene, 35297 Neighboring gene predicted gene 12784

Genomic regions, transcripts, and products

Expression

  • 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

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Targeted (2) 
  • Endonuclease-mediated (1) 

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
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
PubMed 
enables single-stranded RNA binding IDA
Inferred from Direct Assay
more info
PubMed 
Component Evidence Code Pubs
is_active_in P-body IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
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
 
part_of messenger ribonucleoprotein complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in mitotic spindle ISO
Inferred from Sequence Orthology
more info
 

General protein information

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)

  1. NM_001360654.1NP_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
    UniProtKB/TrEMBL
    A0A6P5Q1R4
    Conserved Domains (2) summary
    cd01736
    Location:477
    LSm14_N; Like-Sm protein 14, N-terminal domain
    pfam09532
    Location:290398
    FDF; FDF domain
  2. NM_001360655.1NP_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
    UniProtKB/TrEMBL
    A0A6P7R7A9
    Conserved Domains (2) summary
    cd01736
    Location:477
    LSm14_N; Like-Sm protein 14, N-terminal domain
    pfam09532
    Location:290397
    FDF; FDF domain
  3. NM_001360656.1NP_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
    UniProtKB/TrEMBL
    A0A6P5Q4A5
    Conserved Domains (2) summary
    cd01736
    Location:477
    LSm14_N; Like-Sm protein 14, N-terminal domain
    pfam09532
    Location:231339
    FDF; FDF domain
  4. NM_025948.3NP_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
    UniProtKB/TrEMBL
    A0A6P5Q8Y0, A0A8C6HDZ7
    Related
    ENSMUSP00000082723.6, ENSMUST00000085585.12
    Conserved Domains (2) summary
    cd01736
    Location:477
    LSm14_N; Like-Sm protein 14, N-terminal domain
    pfam09532
    Location:290398
    FDF; FDF domain

RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...Open this link in a new tab

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000073.7 Reference GRCm39 C57BL/6J

    Range
    34043569..34089134 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

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

    Conserved Domains (2) summary
    cd01736
    Location:477
    LSm14_N; Like-Sm protein 14, N-terminal domain
    pfam09532
    Location:290397
    FDF; FDF domain
  2. XM_017312254.3XP_017167743.1  protein LSM14 homolog A isoform X3

    Conserved Domains (2) summary
    cd01736
    Location:477
    LSm14_N; Like-Sm protein 14, N-terminal domain
    pfam09532
    Location:231339
    FDF; FDF domain
  3. XM_036153375.1XP_036009268.1  protein LSM14 homolog A isoform X4

    Conserved Domains (2) summary
    cd01736
    Location:477
    LSm14_N; Like-Sm protein 14, N-terminal domain
    pfam09532
    Location:231338
    FDF; FDF domain
  4. XM_011250679.4XP_011248981.1  protein LSM14 homolog A isoform X2

    UniProtKB/TrEMBL
    A0A6P7RED2
    Conserved Domains (2) summary
    pfam09532
    Location:254362
    FDF; FDF domain
    cl00259
    Location:441
    Sm_like; Sm and related proteins
  5. XM_011250681.4XP_011248983.1  protein LSM14 homolog A isoform X5

    Conserved Domains (2) summary
    pfam09532
    Location:195303
    FDF; FDF domain
    cl00259
    Location:441
    Sm_like; Sm and related proteins