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    LSM14A LSM14A mRNA processing body assembly factor [ Homo sapiens (human) ]

    Gene ID: 26065, updated on 10-Dec-2024

    Summary

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    Official Symbol
    LSM14Aprovided by HGNC
    Official Full Name
    LSM14A mRNA processing body assembly factorprovided by HGNC
    Primary source
    HGNC:HGNC:24489
    See related
    Ensembl:ENSG00000257103 MIM:610677; AllianceGenome:HGNC:24489
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    RAP55; FAM61A; RAP55A; C19orf13
    Summary
    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]
    Expression
    Ubiquitous expression in thyroid (RPKM 23.9), lymph node (RPKM 21.2) and 25 other tissues See more
    Orthologs
    mouse all
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    Genomic context

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    See LSM14A in Genome Data Viewer
    Location:
    19q13.11
    Exon count:
    15
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 19 NC_000019.10 (34172504..34229288)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 19 NC_060943.1 (36693004..36749747)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 19 NC_000019.9 (34663409..34720193)

    Chromosome 19 - NC_000019.10Genomic Context describing neighboring genes Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_51262 Neighboring gene ribosomal protein S4X pseudogene 21 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:34617551-34618060 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10501 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:34625657-34626192 Neighboring gene coiled-coil-helix-coiled-coil-helix domain containing 2 pseudogene 3 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr19:34715679-34716244 Neighboring gene MPRA-validated peak3441 silencer Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr19:34728773-34729345 Neighboring gene H3K27ac hESC enhancer GRCh37_chr19:34745756-34746277 Neighboring gene MPRA-validated peak3442 silencer Neighboring gene H3K27ac hESC enhancer GRCh37_chr19:34761021-34761721 Neighboring gene granule associated Rac and RHOG effector 1 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:34801395-34801894 Neighboring gene ribosomal protein L29 pseudogene 33 Neighboring gene Sharpr-MPRA regulatory region 14193 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:34833051-34833551 Neighboring gene H3K27ac hESC enhancer GRCh37_chr19:34850825-34851431 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:34857175-34857915 Neighboring gene glucose-6-phosphate isomerase

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Tissue-specific circular RNA induction during human fetal development
    • Description: 35 human fetal samples from 6 tissues (3 - 7 replicates per tissue) collected between 10 and 20 weeks gestational time were sequenced using Illumina TruSeq Stranded Total RNA
    • BioProject: PRJNA270632
    • Publication: PMID 26076956
    • Analysis date: Mon Apr 2 22:54:59 2018

    Bibliography

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    Related articles in PubMed

    1. Excessive Iron and α-Synuclein Oligomer in Brain are Relevant to Pure Apathy in Parkinson Disease. Wang F, et al. J Geriatr Psychiatry Neurol, 2016 Jul. PMID 26940028
    2. Nonstructural Protein NSs Hampers Cellular Antiviral Response through LSm14A during Severe Fever with Thrombocytopenia Syndrome Virus Infection. Zhang L, et al. J Immunol, 2021 Jul 15. PMID 34244294
    3. Homozygous alpha-synuclein p.A53V in familial Parkinson's disease. Yoshino H, et al. Neurobiol Aging, 2017 Sep. PMID 28666710
    4. Localization and role of RAP55/LSM14 in HeLa cells: a new finding on the mitotic spindle assembly. Mili D, et al. Acta Biochim Pol, 2015. PMID 26339800
    5. PRMT1 is required for RAP55 to localize to processing bodies. Matsumoto K, et al. RNA Biol, 2012 May. PMID 22614839

    See all (104) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Nonstructural Protein NSs Hampers Cellular Antiviral Response through LSm14A during Severe Fever with Thrombocytopenia Syndrome Virus Infection.
      Title: Nonstructural Protein NSs Hampers Cellular Antiviral Response through LSm14A during Severe Fever with Thrombocytopenia Syndrome Virus Infection.
    2. alpha-synuclein p.A53V homozygous mutation leads to a distinct phenotype of progressive parkinsonism and cognitive decline, commonly observed in patients with SNCA missense mutation or multiplications
      Title: Homozygous alpha-synuclein p.A53V in familial Parkinson's disease.
    3. Excessive iron and alpha-synuclein oligomer in brain commonly contributed to pure apathy of PD through potential mechanism of oxidative stress.
      Title: Excessive Iron and α-Synuclein Oligomer in Brain are Relevant to Pure Apathy in Parkinson Disease.
    4. RAP55/LSM14 binds directly the tubulin and that is implicated in the process of the mitotic spindle stabilization
      Title: Localization and role of RAP55/LSM14 in HeLa cells: a new finding on the mitotic spindle assembly.
    5. RAP55 is important for the assembly of cytoplasmic mRNP granules and that PRMT1 is required for RAP55A to localize to P-bodies.
      Title: PRMT1 is required for RAP55 to localize to processing bodies.
    6. The NS1 protein of influenza A virus interacts with cellular processing bodies and stress granules through RNA-associated protein 55 (RAP55) during virus infection.
      Title: The NS1 protein of influenza A virus interacts with cellular processing bodies and stress granules through RNA-associated protein 55 (RAP55) during virus infection.
    7. LSm14A is a processing body-associated sensor of viral nucleic acids that initiates cellular antiviral response in the early phase of viral infection.
      Title: LSm14A is a processing body-associated sensor of viral nucleic acids that initiates cellular antiviral response in the early phase of viral infection.
    8. this protein family has evolved a common and fundamental role in the control of mRNA translation. Human RAP55A is an autoantigen detected in the serum of patients with primary biliary cirrhosis (PBC).
      Title: RAP55: insights into an evolutionarily conserved protein family.
    Submit: New GeneRIF Correction

    Phenotypes

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    Find tests for this gene in the NIH Genetic Testing Registry (GTR)

    Review eQTL and phenotype association data in this region using PheGenI

    Variation

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    See variants in ClinVar

    See studies and variants in dbVar

    See Variation Viewer (GRCh37.p13)

    See Variation Viewer (GRCh38)

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Clone Names

    • DKFZp434D1335

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables RNA binding HDA PubMed 
    enables double-stranded DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables double-stranded RNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables mRNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables single-stranded RNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in P-body assembly IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in P-body assembly IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in P-body assembly IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in RIG-I signaling pathway IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in defense response to virus IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in mitotic spindle assembly IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in negative regulation of translation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in positive regulation of type I interferon-mediated signaling pathway 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 cytoplasm IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in cytoplasmic ribonucleoprotein granule IDA
    Inferred from Direct Assay
    more info
    		  
    located_in cytoplasmic stress granule IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in cytosol IDA
    Inferred from Direct Assay
    more info
    		  
    located_in mitotic spindle IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    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
    LSM14A, SCD6 homolog A
    RNA-associated protein 55
    RNA-associated protein 55A
    alphaSNBP
    family with sequence similarity 61, member A
    hRAP55
    hRAP55A
    protein SCD6 homolog
    putative alpha-synuclein-binding protein

    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_001114093.3 → NP_001107565.1  protein LSM14 homolog A isoform a

      See identical proteins and their annotated locations for NP_001107565.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) encodes isoform a. While isoforms a and b are of the same length, their C-termini are different.
      Source sequence(s)
      AC010614
      Consensus CDS
      CCDS46040.1
      UniProtKB/Swiss-Prot
      B4DTG6, Q76LX7, Q8ND56, Q96AR3, Q96K73, Q96SN5, Q9UFR3
      Related
      ENSP00000413964.3, ENST00000433627.9
      Conserved Domains (2) summary
      cd01736
      Location:4 → 77
      LSm14_N; Like-Sm protein 14, N-terminal domain
      pfam09532
      Location:291 → 399
      FDF; FDF domain

    2. NM_001384420.1 → NP_001371349.1  protein LSM14 homolog A isoform c

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) encodes the longest isoform (c).
      Source sequence(s)
      AC010614
      Conserved Domains (2) summary
      cd01736
      Location:4 → 77
      LSm14_N; Like-Sm protein 14, N-terminal domain
      pfam09532
      Location:291 → 399
      FDF; FDF domain

    3. NM_001384421.1 → NP_001371350.1  protein LSM14 homolog A isoform d

      Status: VALIDATED

      Source sequence(s)
      AC010614
      Conserved Domains (2) summary
      cd01736
      Location:4 → 77
      LSm14_N; Like-Sm protein 14, N-terminal domain
      pfam09532
      Location:289 → 397
      FDF; FDF domain

    4. NM_001384422.1 → NP_001371351.1  protein LSM14 homolog A isoform e

      Status: VALIDATED

      Source sequence(s)
      AC010614
      Conserved Domains (2) summary
      cd01736
      Location:4 → 77
      LSm14_N; Like-Sm protein 14, N-terminal domain
      pfam09532
      Location:280 → 388
      FDF; FDF domain

    5. NM_001384423.1 → NP_001371352.1  protein LSM14 homolog A isoform f

      Status: VALIDATED

      Source sequence(s)
      AC010614
      Consensus CDS
      CCDS92582.1
      UniProtKB/TrEMBL
      A0A140TA76
      Related
      ENSP00000446451.1, ENST00000540746.6
      Conserved Domains (2) summary
      cd01736
      Location:4 → 77
      LSm14_N; Like-Sm protein 14, N-terminal domain
      pfam09532
      Location:250 → 358
      FDF; FDF domain

    6. NM_001384424.1 → NP_001371353.1  protein LSM14 homolog A isoform g

      Status: VALIDATED

      Source sequence(s)
      AC010614
      UniProtKB/TrEMBL
      A0A140TA76
      Conserved Domains (2) summary
      cd01736
      Location:4 → 77
      LSm14_N; Like-Sm protein 14, N-terminal domain
      pfam09532
      Location:232 → 340
      FDF; FDF domain

    7. NM_001384425.1 → NP_001371354.1  protein LSM14 homolog A isoform h

      Status: VALIDATED

      Description
      Transcript Variant: This variant (8) encodes isoform h. While isoforms h and i are of the same length, their C-termini are different.
      Source sequence(s)
      AC010614
      UniProtKB/TrEMBL
      A0A140TA76
      Conserved Domains (2) summary
      cd01736
      Location:4 → 77
      LSm14_N; Like-Sm protein 14, N-terminal domain
      pfam09532
      Location:232 → 340
      FDF; FDF domain

    8. NM_001384426.1 → NP_001371355.1  protein LSM14 homolog A isoform i

      Status: VALIDATED

      Description
      Transcript Variant: This variant (9) encodes isoform i. While isoforms h and i are of the same length, their C-termini are different.
      Source sequence(s)
      AC010614
      UniProtKB/TrEMBL
      A0A140TA76
      Conserved Domains (2) summary
      cd01736
      Location:4 → 77
      LSm14_N; Like-Sm protein 14, N-terminal domain
      pfam09532
      Location:232 → 340
      FDF; FDF domain

    9. NM_001384427.1 → NP_001371356.1  protein LSM14 homolog A isoform j

      Status: VALIDATED

      Description
      Transcript Variant: This variant (10) encodes isoform j. While isoforms j and k are of the same length, their C-termini are different.
      Source sequence(s)
      AC010614
      Conserved Domains (2) summary
      cd01736
      Location:4 → 77
      LSm14_N; Like-Sm protein 14, N-terminal domain
      pfam09532
      Location:256 → 338
      FDF; FDF domain

    10. NM_001384428.1 → NP_001371357.1  protein LSM14 homolog A isoform k

      Status: VALIDATED

      Description
      Transcript Variant: This variant (11) encodes isoform k. While isoforms j and k are of the same length, their C-termini are different.
      Source sequence(s)
      AC010614
      Conserved Domains (2) summary
      cd01736
      Location:4 → 77
      LSm14_N; Like-Sm protein 14, N-terminal domain
      pfam09532
      Location:256 → 338
      FDF; FDF domain

    11. NM_001384429.1 → NP_001371358.1  protein LSM14 homolog A isoform l

      Status: VALIDATED

      Source sequence(s)
      AC010614
      UniProtKB/TrEMBL
      A0A140TA76
      Conserved Domains (2) summary
      cd01736
      Location:4 → 77
      LSm14_N; Like-Sm protein 14, N-terminal domain
      pfam09532
      Location:210 → 318
      FDF; FDF domain

    12. NM_001384430.1 → NP_001371359.1  protein LSM14 homolog A isoform m

      Status: VALIDATED

      Source sequence(s)
      AC010614
      Conserved Domains (1) summary
      pfam09532
      Location:197 → 305
      FDF; FDF domain

    13. NM_001384431.1 → NP_001371360.1  protein LSM14 homolog A isoform n

      Status: VALIDATED

      Description
      Transcript Variant: This variant (14) encodes isoform n. While isoforms n and o are of the same length, their C-termini are different.
      Source sequence(s)
      AC010614
      Conserved Domains (1) summary
      pfam09532
      Location:184 → 292
      FDF; FDF domain

    14. NM_001384432.1 → NP_001371361.1  protein LSM14 homolog A isoform o

      Status: VALIDATED

      Description
      Transcript Variant: This variant (15), as well as variants 16 and 17, encodes isoform o. While isoforms n and o are of the same length, their C-termini are different.
      Source sequence(s)
      AC010614
      Conserved Domains (1) summary
      pfam09532
      Location:184 → 292
      FDF; FDF domain

    15. NM_001384433.1 → NP_001371362.1  protein LSM14 homolog A isoform o

      Status: VALIDATED

      Description
      Transcript Variant: This variant (16), as well as variants 15 and 17, encodes isoform o. While isoforms n and o are of the same length, their C-termini are different.
      Source sequence(s)
      AC010614
      Conserved Domains (1) summary
      pfam09532
      Location:184 → 292
      FDF; FDF domain

    16. NM_001384434.1 → NP_001371363.1  protein LSM14 homolog A isoform o

      Status: VALIDATED

      Description
      Transcript Variant: This variant (17), as well as variants 15 and 16, encodes isoform o. While isoforms n and o are of the same length, their C-termini are different.
      Source sequence(s)
      AC010614
      Conserved Domains (1) summary
      pfam09532
      Location:184 → 292
      FDF; FDF domain

    17. NM_001384435.1 → NP_001371364.1  protein LSM14 homolog A isoform p

      Status: VALIDATED

      Description
      Transcript Variant: This variant (18) encodes isoform p. While isoforms p and q are of the same length, their C-termini are different.
      Source sequence(s)
      AC010614
      UniProtKB/TrEMBL
      A0A140TA76
      Conserved Domains (2) summary
      cd01736
      Location:4 → 77
      LSm14_N; Like-Sm protein 14, N-terminal domain
      pfam09532
      Location:197 → 279
      FDF; FDF domain

    18. NM_001384436.1 → NP_001371365.1  protein LSM14 homolog A isoform q

      Status: VALIDATED

      Description
      Transcript Variant: This variant (19) encodes isoform q. While isoforms p and q are of the same length, their C-termini are different.
      Source sequence(s)
      AC010614
      UniProtKB/TrEMBL
      A0A140TA76
      Conserved Domains (2) summary
      cd01736
      Location:4 → 77
      LSm14_N; Like-Sm protein 14, N-terminal domain
      pfam09532
      Location:197 → 279
      FDF; FDF domain

    19. NM_001384437.1 → NP_001371366.1  protein LSM14 homolog A isoform r

      Status: VALIDATED

      Source sequence(s)
      AC010614
      Conserved Domains (1) summary
      pfam09532
      Location:149 → 231
      FDF; FDF domain

    20. NM_015578.4 → NP_056393.2  protein LSM14 homolog A isoform b

      See identical proteins and their annotated locations for NP_056393.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks an alternate exon compared to variant 1 and encodes isoform b. While isoforms a and b are of the same length, their C-termini are different.
      Source sequence(s)
      AC010614
      Consensus CDS
      CCDS12435.1
      UniProtKB/Swiss-Prot
      Q8ND56
      Related
      ENSP00000446271.2, ENST00000544216.8
      Conserved Domains (2) summary
      cd01736
      Location:4 → 77
      LSm14_N; Like-Sm protein 14, N-terminal domain
      pfam09532
      Location:291 → 399
      FDF; FDF domain

    RNA

    1. NR_169261.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AC010614

    2. NR_169262.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AC010614

    3. NR_169263.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AC010614

    4. NR_169264.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AC010614

    5. NR_169265.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AC010614

    6. NR_169266.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AC010614

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000019.10 Reference GRCh38.p14 Primary Assembly

      Range
      34172504..34229288
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_005258719.6 → XP_005258776.1  protein LSM14 homolog A isoform X1

      See identical proteins and their annotated locations for XP_005258776.1

      Conserved Domains (2) summary
      cd01736
      Location:4 → 77
      LSm14_N; Like-Sm protein 14, N-terminal domain
      pfam09532
      Location:291 → 399
      FDF; FDF domain

    2. XM_005258721.6 → XP_005258778.1  protein LSM14 homolog A isoform X3

      See identical proteins and their annotated locations for XP_005258778.1

      Conserved Domains (2) summary
      cd01736
      Location:4 → 77
      LSm14_N; Like-Sm protein 14, N-terminal domain
      pfam09532
      Location:256 → 338
      FDF; FDF domain

    3. XM_005258720.6 → XP_005258777.1  protein LSM14 homolog A isoform X2

      See identical proteins and their annotated locations for XP_005258777.1

      UniProtKB/TrEMBL
      A0A140TA76
      Conserved Domains (2) summary
      pfam09532
      Location:232 → 340
      FDF; FDF domain
      pfam12701
      Location:6 → 80
      LSM14; Scd6-like Sm domain

    4. XM_011526708.4 → XP_011525010.1  protein LSM14 homolog A isoform X4

      See identical proteins and their annotated locations for XP_011525010.1

      Conserved Domains (2) summary
      pfam09532
      Location:197 → 279
      FDF; FDF domain
      pfam12701
      Location:6 → 80
      LSM14; Scd6-like Sm domain

    Reference GRCh38.p14 ALT_REF_LOCI_1

    Genomic

    1. NW_003315963.1 Reference GRCh38.p14 ALT_REF_LOCI_1

      Range
      20245..77036
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054329594.1 → XP_054185569.1  protein LSM14 homolog A isoform X1

    2. XM_054329596.1 → XP_054185571.1  protein LSM14 homolog A isoform X3

    3. XM_054329595.1 → XP_054185570.1  protein LSM14 homolog A isoform X2

      UniProtKB/TrEMBL
      A0A140TA76

    4. XM_054329597.1 → XP_054185572.1  protein LSM14 homolog A isoform X4

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060943.1 Alternate T2T-CHM13v2.0

      Range
      36693004..36749747
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054320489.1 → XP_054176464.1  protein LSM14 homolog A isoform X1

    2. XM_054320491.1 → XP_054176466.1  protein LSM14 homolog A isoform X3

    3. XM_054320490.1 → XP_054176465.1  protein LSM14 homolog A isoform X2

      UniProtKB/TrEMBL
      A0A140TA76

    4. XM_054320492.1 → XP_054176467.1  protein LSM14 homolog A isoform X4

    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8ND56.3 GenPept UniProtKB/Swiss-Prot:Q8ND56

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