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Aliases for LSM14A Gene

Aliases for LSM14A Gene

  • LSM14A, MRNA Processing Body Assembly Factor 2 3 5
  • Family With Sequence Similarity 61, Member A 2 3
  • Putative Alpha-Synuclein-Binding Protein 3 4
  • RNA-Associated Protein 55A 3 4
  • RNA-Associated Protein 55 2 3
  • Protein SCD6 Homolog 3 4
  • AlphaSNBP 3 4
  • C19orf13 3 4
  • HRAP55A 3 4
  • FAM61A 3 4
  • RAP55A 3 4
  • HRAP55 3 4
  • RAP55 3 4
  • LSM14 Homolog A (SCD6, S. Cerevisiae) 2
  • Chromosome 19 Open Reading Frame 13 2
  • Protein LSM14 Homolog A 3
  • LSM14A, SCD6 Homolog A 3
  • LSM14 Homolog A 3
  • Protein FAM61A 4

External Ids for LSM14A Gene

Previous HGNC Symbols for LSM14A Gene

  • C19orf13
  • FAM61A

Previous GeneCards Identifiers for LSM14A Gene

  • GC19P039359
  • GC19P034663
  • GC19P031161

Summaries for LSM14A Gene

Entrez Gene Summary for LSM14A Gene

  • Sm-like proteins were identified in a variety of organisms based on sequence homology with the Sm protein family (see SNRPD2; 601061). Sm-like proteins contain the Sm sequence motif, which consists of 2 regions separated by a linker of variable length that folds as a loop. The Sm-like proteins are thought to form a stable heteromer present in tri-snRNP particles, which are important for pre-mRNA splicing.[supplied by OMIM, Mar 2008]

GeneCards Summary for LSM14A Gene

LSM14A (LSM14A, MRNA Processing Body Assembly Factor) is a Protein Coding gene. Diseases associated with LSM14A include Autoimmune Disease Of Urogenital Tract. Gene Ontology (GO) annotations related to this gene include double-stranded RNA binding. An important paralog of this gene is LSM14B.

UniProtKB/Swiss-Prot for LSM14A Gene

  • Essential for formation of P-bodies, cytoplasmic structures that provide storage sites for non-translating mRNAs.

Additional gene information for LSM14A Gene

No data available for CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for LSM14A Gene

Genomics for LSM14A Gene

GeneHancer (GH) Regulatory Elements for LSM14A Gene

Promoters and enhancers for LSM14A Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH19I034170 Promoter/Enhancer 2.5 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 655.7 +0.7 699 5.2 FEZF1 DMAP1 IRF4 YY1 ZNF213 ZNF143 NFYC ZC3H11A SSRP1 ZNF610 LSM14A GC19M034171 ZNF599 ZNF792 KIAA0355 ZNF302 ZNF181 ENSG00000271032 WTIP ZNF30
GH19I033370 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE dbSUPER 134.3 -797.7 -797748 8.7 FEZF1 YY1 ZNF213 ZNF143 ZNF548 SP3 NFYC ZFP41 SSRP1 ZNF610 CEBPG GPATCH1 LSM14A CEP89 KIAA0355 FAAP24 PDCD5 ENSG00000267219 WDR88 ANKRD27
GH19I034994 Promoter/Enhancer 2.8 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 86.8 +828.5 828485 13.5 CLOCK MLX YBX1 DMAP1 YY1 SLC30A9 ZNF213 E2F8 ZNF416 ZNF548 GRAMD1A ENSG00000269303 TMEM147-AS1 ZNF599 HAUS5 LSM14A KMT2B ZNF792 KIAA0355 ZNF302
GH19I033819 Enhancer 1.7 FANTOM5 Ensembl ENCODE dbSUPER 113.4 -351.8 -351804 2.8 ZFP64 ARID4B SIN3A FEZF1 ZNF213 ZNF302 ZNF416 KLF13 SP3 ZC3H11A GPATCH1 CEP89 ZNF599 LSM14A KIAA0355 ZNF181 ENSG00000267219 WTIP FAAP24 ENSG00000271049
GH19I033296 Promoter/Enhancer 2.5 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 74.1 -871.0 -871041 10.6 MLX ARNT ARID4B SIN3A DMAP1 ZNF2 YY1 ZNF213 ZNF416 ZNF143 CEBPA-AS1 CEBPA ENSG00000267580 GC19M033302 ENSG00000267727 GPATCH1 ZNF507 CEP89 LSM14A KIAA0355
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around LSM14A on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the LSM14A gene promoter:

Genomic Locations for LSM14A Gene

Genomic Locations for LSM14A Gene
chr19:34,172,447-34,229,515
(GRCh38/hg38)
Size:
57,069 bases
Orientation:
Plus strand
chr19:34,663,352-34,720,420
(GRCh37/hg19)

Genomic View for LSM14A Gene

Genes around LSM14A on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
LSM14A Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for LSM14A Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for LSM14A Gene

Proteins for LSM14A Gene

  • Protein details for LSM14A Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q8ND56-LS14A_HUMAN
    Recommended name:
    Protein LSM14 homolog A
    Protein Accession:
    Q8ND56
    Secondary Accessions:
    • B4DTG6
    • Q76LX7
    • Q96AR3
    • Q96K73
    • Q96SN5
    • Q9UFR3

    Protein attributes for LSM14A Gene

    Size:
    463 amino acids
    Molecular mass:
    50530 Da
    Quaternary structure:
    • Component of a ribonucleoprotein (RNP) complex.
    SequenceCaution:
    • Sequence=BAB55066.1; Type=Erroneous initiation; Evidence={ECO:0000305};

    Alternative splice isoforms for LSM14A Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for LSM14A Gene

Post-translational modifications for LSM14A Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for LSM14A Gene

Domains & Families for LSM14A Gene

Gene Families for LSM14A Gene

HGNC:
Human Protein Atlas (HPA):
  • Cancer-related genes
  • Predicted intracellular proteins

Protein Domains for LSM14A Gene

Suggested Antigen Peptide Sequences for LSM14A Gene

Graphical View of Domain Structure for InterPro Entry

Q8ND56

UniProtKB/Swiss-Prot:

LS14A_HUMAN :
  • The LSM14 domain and the RGG repeats are required for accumulation in P-bodies, and the region containing the FDF motif is responsible for cytoplasmic retention.
  • Belongs to the LSM14 family.
Domain:
  • The LSM14 domain and the RGG repeats are required for accumulation in P-bodies, and the region containing the FDF motif is responsible for cytoplasmic retention.
Family:
  • Belongs to the LSM14 family.
genes like me logo Genes that share domains with LSM14A: view

Function for LSM14A Gene

Molecular function for LSM14A Gene

UniProtKB/Swiss-Prot Function:
Essential for formation of P-bodies, cytoplasmic structures that provide storage sites for non-translating mRNAs.

Phenotypes From GWAS Catalog for LSM14A Gene

Gene Ontology (GO) - Molecular Function for LSM14A Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003690 double-stranded DNA binding IEA --
GO:0003723 RNA binding HDA,IDA 22658674
GO:0003725 double-stranded RNA binding IEA --
GO:0003727 single-stranded RNA binding IEA --
genes like me logo Genes that share ontologies with LSM14A: view
genes like me logo Genes that share phenotypes with LSM14A: view

Animal Models for LSM14A Gene

MGI Knock Outs for LSM14A:

Animal Model Products

miRNA for LSM14A Gene

miRTarBase miRNAs that target LSM14A

Clone Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for LSM14A Gene

Localization for LSM14A Gene

Subcellular locations from UniProtKB/Swiss-Prot for LSM14A Gene

Cytoplasm, P-body. Cytoplasm, Stress granule.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for LSM14A gene
Compartment Confidence
cytosol 4

Subcellular locations from the

Human Protein Atlas (HPA)
  • Cytoplasmic bodies (3)
  • Cytosol (3)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for LSM14A Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000932 P-body IDA 16484376
GO:0005737 cytoplasm IEA,IDA 16484376
GO:0005829 cytosol IDA --
GO:0010494 cytoplasmic stress granule IDA 16484376
GO:0030529 intracellular ribonucleoprotein complex IEA --
genes like me logo Genes that share ontologies with LSM14A: view

Pathways & Interactions for LSM14A Gene

SuperPathways for LSM14A Gene

No Data Available

Gene Ontology (GO) - Biological Process for LSM14A Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006417 regulation of translation IEA --
GO:0007275 multicellular organism development IEA --
GO:0033962 cytoplasmic mRNA processing body assembly IMP 17074753
GO:0039529 RIG-I signaling pathway IEA --
GO:0051607 defense response to virus IEA --
genes like me logo Genes that share ontologies with LSM14A: view

No data available for Pathways by source and SIGNOR curated interactions for LSM14A Gene

Drugs & Compounds for LSM14A Gene

No Compound Related Data Available

Transcripts for LSM14A Gene

Unigene Clusters for LSM14A Gene

LSM14A, SCD6 homolog A (S. cerevisiae):
Representative Sequences:

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for LSM14A Gene

No ASD Table

Relevant External Links for LSM14A Gene

GeneLoc Exon Structure for
LSM14A
ECgene alternative splicing isoforms for
LSM14A

Expression for LSM14A Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for LSM14A Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for LSM14A Gene

This gene is overexpressed in Pancreas (11.0), CD8 Tcells (10.0), and Fetal Brain (7.3).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for LSM14A Gene



Protein tissue co-expression partners for LSM14A Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of LSM14A Gene:

LSM14A

SOURCE GeneReport for Unigene cluster for LSM14A Gene:

Hs.744009

Evidence on tissue expression from TISSUES for LSM14A Gene

  • Blood(4)
  • Liver(4)
  • Pancreas(4)
  • Nervous system(4)
genes like me logo Genes that share expression patterns with LSM14A: view

No data available for mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for LSM14A Gene

Orthologs for LSM14A Gene

This gene was present in the common ancestor of animals and fungi.

Orthologs for LSM14A Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia LSM14A 33 34
  • 99.64 (n)
dog
(Canis familiaris)
Mammalia LSM14A 33 34
  • 94 (n)
oppossum
(Monodelphis domestica)
Mammalia LSM14A 34
  • 94 (a)
OneToOne
cow
(Bos Taurus)
Mammalia LSM14A 33 34
  • 93.3 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia LSM14A 34
  • 92 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Lsm14a 33 16 34
  • 90.5 (n)
rat
(Rattus norvegicus)
Mammalia Lsm14a 33
  • 90.5 (n)
chicken
(Gallus gallus)
Aves LSM14A 33 34
  • 84.13 (n)
lizard
(Anolis carolinensis)
Reptilia LSM14A 34
  • 85 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia lsm14a 33
  • 76.24 (n)
African clawed frog
(Xenopus laevis)
Amphibia MGC53350 33
zebrafish
(Danio rerio)
Actinopterygii lsm14ab 34
  • 68 (a)
OneToMany
lsm14aa 33 34
  • 65.48 (n)
wufa10g11 33
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.2043 33
fruit fly
(Drosophila melanogaster)
Insecta tral 34
  • 22 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea car-1 34
  • 44 (a)
OneToMany
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes SCD6 34
  • 30 (a)
OneToMany
sea squirt
(Ciona savignyi)
Ascidiacea CSA.10167 34
  • 43 (a)
OneToMany
Species where no ortholog for LSM14A was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for LSM14A Gene

ENSEMBL:
Gene Tree for LSM14A (if available)
TreeFam:
Gene Tree for LSM14A (if available)

Paralogs for LSM14A Gene

Paralogs for LSM14A Gene

(1) SIMAP similar genes for LSM14A Gene using alignment to 4 proteins:

genes like me logo Genes that share paralogs with LSM14A: view

Variants for LSM14A Gene

Sequence variations from dbSNP and Humsavar for LSM14A Gene

SNP ID Clin Chr 19 pos Variation AA Info Type
rs1000025390 -- 34,217,305(+) TTGTTT/TT intron_variant
rs1000026471 -- 34,178,147(+) C/T intron_variant
rs1000065349 -- 34,186,538(+) G/A intron_variant
rs1000082426 -- 34,172,441(+) GCCGCTGCCGC/GCCGCTGCCGCTGCCGC 5_prime_UTR_variant, genic_upstream_transcript_variant, upstream_transcript_variant
rs1000127260 -- 34,229,291(+) C/T 3_prime_UTR_variant, downstream_transcript_variant, genic_downstream_transcript_variant

Structural Variations from Database of Genomic Variants (DGV) for LSM14A Gene

Variant ID Type Subtype PubMed ID
dgv3515n100 CNV gain 25217958
nsv2467 CNV insertion 18451855
nsv474170 CNV novel sequence insertion 20440878
nsv509737 CNV insertion 20534489
nsv963038 CNV duplication 23825009

Variation tolerance for LSM14A Gene

Residual Variation Intolerance Score: 37.8% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 6.17; 75.87% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for LSM14A Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
LSM14A

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for LSM14A Gene

Disorders for LSM14A Gene

MalaCards: The human disease database

(1) MalaCards diseases for LSM14A Gene - From: DISEASES

Disorder Aliases PubMed IDs
autoimmune disease of urogenital tract
- elite association - COSMIC cancer census association via MalaCards

Additional Disease Information for LSM14A

genes like me logo Genes that share disorders with LSM14A: view

No data available for UniProtKB/Swiss-Prot and Genatlas for LSM14A Gene

Publications for LSM14A Gene

  1. LSm14A is a processing body-associated sensor of viral nucleic acids that initiates cellular antiviral response in the early phase of viral infection. (PMID: 22745163) Li Y … Shu HB (Proceedings of the National Academy of Sciences of the United States of America 2012) 2 3 58
  2. RAP55: insights into an evolutionarily conserved protein family. (PMID: 18723115) Marnef A … Ladomery MR (The international journal of biochemistry & cell biology 2009) 3 4 58
  3. Global, in vivo, and site-specific phosphorylation dynamics in signaling networks. (PMID: 17081983) Olsen JV … Mann M (Cell 2006) 3 4 58
  4. RAP55, a cytoplasmic mRNP component, represses translation in Xenopus oocytes. (PMID: 17074753) Tanaka KJ … Tsujimoto M (The Journal of biological chemistry 2006) 3 4 58
  5. RNA-associated protein 55 (RAP55) localizes to mRNA processing bodies and stress granules. (PMID: 16484376) Yang WH … Bloch DB (RNA (New York, N.Y.) 2006) 3 4 58

Products for LSM14A Gene

Sources for LSM14A Gene

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