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    LSM14B LSM family member 14B [ Homo sapiens (human) ]

    Gene ID: 149986, updated on 10-Dec-2024

    Summary

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    Official Symbol
    LSM14Bprovided by HGNC
    Official Full Name
    LSM family member 14Bprovided by HGNC
    Primary source
    HGNC:HGNC:15887
    See related
    Ensembl:ENSG00000149657 MIM:620689; AllianceGenome:HGNC:15887
    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
    FT005; LSM13; FAM61B; RAP55B; C20orf40; bA11M20.3
    Summary
    Enables RNA binding activity. Predicted to be involved in several processes, including maternal mRNA clearance; meiotic cell cycle process involved in oocyte maturation; and ovarian follicle development. Predicted to be located in cytoplasmic ribonucleoprotein granule. Predicted to be part of ribonucleoprotein complex. [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Ubiquitous expression in testis (RPKM 18.4), brain (RPKM 13.1) and 25 other tissues See more
    Orthologs
    mouse all
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    Genomic context

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    See LSM14B in Genome Data Viewer
    Location:
    20q13.33
    Exon count:
    13
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 20 NC_000020.11 (62122475..62135374)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 20 NC_060944.1 (63913343..63926242)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 20 NC_000020.10 (60697531..60710430)

    Chromosome 20 - NC_000020.11Genomic Context describing neighboring genes Neighboring gene TATA-box binding protein associated factor 4 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:60639656-60640169 Neighboring gene H3K27ac hESC enhancer GRCh37_chr20:60640170-60640684 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 13094 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 13095 Neighboring gene uncharacterized LOC105372705 Neighboring gene H3K27ac hESC enhancer GRCh37_chr20:60641713-60642226 Neighboring gene microRNA 3195 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:60662279-60662835 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:60662836-60663391 Neighboring gene uncharacterized LOC105372706 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:60687696-60688502 Neighboring gene H3K27ac hESC enhancer GRCh37_chr20:60697043-60697730 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:60697731-60698419 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:60698420-60699107 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:60708899-60709398 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 13098 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 13099 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 13100 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 13101 Neighboring gene Sharpr-MPRA regulatory region 1753 Neighboring gene proteasome 20S subunit alpha 7 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr20:60735092-60736291 Neighboring gene SS18L1 subunit of BAF chromatin remodeling complex Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:60736587-60737199

    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. Rare De Novo Missense Variants in RNA Helicase DDX6 Cause Intellectual Disability and Dysmorphic Features and Lead to P-Body Defects and RNA Dysregulation. Balak C, et al. Am J Hum Genet, 2019 Sep 5. PMID 31422817, Free PMC Article
    2. Novel Sm-like proteins with long C-terminal tails and associated methyltransferases. Albrecht M, et al. FEBS Lett, 2004 Jul 2. PMID 15225602
    3. An Interaction Network of the Human SEPT9 Established by Quantitative Mass Spectrometry. Hecht M, et al. G3 (Bethesda), 2019 Jun 5. PMID 30975701, Free PMC Article
    4. The C-terminal cytoplasmic tail of hedgehog receptor Patched1 is a platform for E3 ubiquitin ligase complexes. Yamaki Y, et al. Mol Cell Biochem, 2016 Mar. PMID 26885983
    5. Interactome Analysis of the Nucleocapsid Protein of SARS-CoV-2 Virus. Zheng X, et al. Pathogens, 2021 Sep 8. PMID 34578187, Free PMC Article

    See all (67) citations in PubMed

    GeneRIFs: Gene References Into Functions

    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)

    HIV-1 interactions

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    Replication interactions

    Interaction Pubs
    Knockdown of LSM14B, SCD6 homolog B by siRNA inhibits HIV-1 replication in HeLa P4/R5 cells PubMed

    Go to the HIV-1, Human Interaction Database

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Clone Names

    • FLJ25473, MGC61931

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables RNA binding HDA PubMed 
    enables mRNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in maternal mRNA clearance ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in meiotic cell cycle process involved in oocyte maturation ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in membraneless organelle assembly ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in oogenesis ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in ovarian follicle development ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in regulation of translation IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in cytoplasmic ribonucleoprotein granule ISS
    Inferred from Sequence or Structural Similarity
    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 B
    Names
    LSM14 homolog B
    LSM14B, SCD6 homolog B
    RNA-associated protein 55B
    family with sequence similarity 61, member B
    hRAP55B

    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_144703.3 → NP_653304.2  protein LSM14 homolog B

      See identical proteins and their annotated locations for NP_653304.2

      Status: VALIDATED

      Source sequence(s)
      AL137077, BC035702, BM547301, BX370449, BX375905, CX166280, DB336439
      Consensus CDS
      CCDS46626.1
      UniProtKB/Swiss-Prot
      Q6PFW8, Q96LH8, Q9BX40
      Related
      ENSP00000279068.5, ENST00000279068.11
      Conserved Domains (2) summary
      cd01736
      Location:6 → 79
      LSm14_N; Like-Sm protein 14, N-terminal domain
      pfam09532
      Location:248 → 349
      FDF; FDF domain

    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_000020.11 Reference GRCh38.p14 Primary Assembly

      Range
      62122475..62135374
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_011528605.3 → XP_011526907.1  protein LSM14 homolog B isoform X1

      See identical proteins and their annotated locations for XP_011526907.1

      Conserved Domains (2) summary
      pfam09532
      Location:349 → 450
      FDF; FDF domain
      pfam12701
      Location:8 → 82
      LSM14; Scd6-like Sm domain

    2. XM_011528607.3 → XP_011526909.1  protein LSM14 homolog B isoform X3

      Conserved Domains (2) summary
      pfam09532
      Location:323 → 424
      FDF; FDF domain
      pfam12701
      Location:8 → 82
      LSM14; Scd6-like Sm domain

    3. XM_011528608.3 → XP_011526910.1  protein LSM14 homolog B isoform X4

      Conserved Domains (2) summary
      cd01736
      Location:6 → 79
      LSm14_N; Like-Sm protein 14, N-terminal domain
      pfam09532
      Location:313 → 414
      FDF; FDF domain

    4. XM_011528609.3 → XP_011526911.1  protein LSM14 homolog B isoform X6

      See identical proteins and their annotated locations for XP_011526911.1

      Conserved Domains (2) summary
      cd01736
      Location:6 → 79
      LSm14_N; Like-Sm protein 14, N-terminal domain
      pfam09532
      Location:274 → 375
      FDF; FDF domain

    5. XM_024451839.2 → XP_024307607.1  protein LSM14 homolog B isoform X7

      Conserved Domains (2) summary
      cd01736
      Location:6 → 79
      LSm14_N; Like-Sm protein 14, N-terminal domain
      pfam09532
      Location:248 → 349
      FDF; FDF domain

    6. XM_011528606.4 → XP_011526908.1  protein LSM14 homolog B isoform X2

      Conserved Domains (2) summary
      pfam09532
      Location:323 → 424
      FDF; FDF domain
      pfam12701
      Location:8 → 82
      LSM14; Scd6-like Sm domain

    7. XM_005260302.4 → XP_005260359.1  protein LSM14 homolog B isoform X5

      See identical proteins and their annotated locations for XP_005260359.1

      Conserved Domains (2) summary
      cd01736
      Location:6 → 79
      LSm14_N; Like-Sm protein 14, N-terminal domain
      pfam09532
      Location:287 → 388
      FDF; FDF domain

    8. XM_011528611.4 → XP_011526913.1  protein LSM14 homolog B isoform X9

      See identical proteins and their annotated locations for XP_011526913.1

      Conserved Domains (2) summary
      cd01736
      Location:6 → 79
      LSm14_N; Like-Sm protein 14, N-terminal domain
      pfam09532
      Location:222 → 323
      FDF; FDF domain

    9. XM_047439933.1 → XP_047295889.1  protein LSM14 homolog B isoform X8

    10. XM_024451841.2 → XP_024307609.1  protein LSM14 homolog B isoform X11

      Conserved Domains (1) summary
      pfam09532
      Location:203 → 304
      FDF; FDF domain

    11. XM_011528612.3 → XP_011526914.1  protein LSM14 homolog B isoform X10

      See identical proteins and their annotated locations for XP_011526914.1

      Conserved Domains (1) summary
      pfam09532
      Location:204 → 305
      FDF; FDF domain

    12. XM_047439934.1 → XP_047295890.1  protein LSM14 homolog B isoform X8

    13. XM_024451840.2 → XP_024307608.1  protein LSM14 homolog B isoform X10

      Conserved Domains (1) summary
      pfam09532
      Location:204 → 305
      FDF; FDF domain

    14. XM_011528613.3 → XP_011526915.1  protein LSM14 homolog B isoform X12

      See identical proteins and their annotated locations for XP_011526915.1

      UniProtKB/TrEMBL
      Q5TBP9
      Related
      ENSP00000355209.3, ENST00000361670.3
      Conserved Domains (1) summary
      pfam09532
      Location:168 → 269
      FDF; FDF domain

    15. XM_047439935.1 → XP_047295891.1  protein LSM14 homolog B isoform X13

    RNA

    1. XR_936508.3 RNA Sequence

    2. XR_936509.3 RNA Sequence

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060944.1 Alternate T2T-CHM13v2.0

      Range
      63913343..63926242
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054323086.1 → XP_054179061.1  protein LSM14 homolog B isoform X1

    2. XM_054323088.1 → XP_054179063.1  protein LSM14 homolog B isoform X3

    3. XM_054323089.1 → XP_054179064.1  protein LSM14 homolog B isoform X4

    4. XM_054323091.1 → XP_054179066.1  protein LSM14 homolog B isoform X6

    5. XM_054323092.1 → XP_054179067.1  protein LSM14 homolog B isoform X7

    6. XM_054323087.1 → XP_054179062.1  protein LSM14 homolog B isoform X2

    7. XM_054323090.1 → XP_054179065.1  protein LSM14 homolog B isoform X5

    8. XM_054323093.1 → XP_054179068.1  protein LSM14 homolog B isoform X9

    9. XM_054323095.1 → XP_054179070.1  protein LSM14 homolog B isoform X10

    10. XM_054323097.1 → XP_054179072.1  protein LSM14 homolog B isoform X12

      UniProtKB/TrEMBL
      Q5TBP9

    11. XM_054323094.1 → XP_054179069.1  protein LSM14 homolog B isoform X10

    12. XM_054323096.1 → XP_054179071.1  protein LSM14 homolog B isoform X11

    13. XM_054323098.1 → XP_054179073.1  protein LSM14 homolog B isoform X13

    RNA

    1. XR_008485239.1 RNA Sequence

    2. XR_008485240.1 RNA Sequence

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_014054.1: Suppressed sequence

      Description
      NM_014054.1: This RefSeq record was removed by NCBI staff. Contact [email protected] for further information.
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9BX40.1 GenPept UniProtKB/Swiss-Prot:Q9BX40

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