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

Gene ID: 26065, updated on 3-Apr-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
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Genomic context

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Location:
19q13.11
Exon count:
15
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 19 NC_000019.10 (34172504..34229288)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 19 NC_060943.1 (36693004..36749747)
105.20220307 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: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

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Related articles in PubMed

  1. 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
  2. Homozygous alpha-synuclein p.A53V in familial Parkinson's disease. Yoshino H, et al. Neurobiol Aging, 2017 Sep. PMID 28666710
  3. 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
  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. The NS1 protein of influenza A virus interacts with cellular processing bodies and stress granules through RNA-associated protein 55 (RAP55) during virus infection. Mok BW, et al. J Virol, 2012 Dec. PMID 22973032, Free PMC Article

See all (90) 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)

Genotypes

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_2023_10

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

  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

  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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