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    SNRPF small nuclear ribonucleoprotein polypeptide F [ Homo sapiens (human) ]

    Gene ID: 6636, updated on 27-Nov-2024

    Summary

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    Official Symbol
    SNRPFprovided by HGNC
    Official Full Name
    small nuclear ribonucleoprotein polypeptide Fprovided by HGNC
    Primary source
    HGNC:HGNC:11162
    See related
    Ensembl:ENSG00000139343 MIM:603541; AllianceGenome:HGNC:11162
    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
    SMF; Sm-F; snRNP-F
    Summary
    Enables RNA binding activity. Involved in spliceosomal snRNP assembly. Located in cytosol and nucleus. Part of several cellular components, including methylosome; nucleus; and pICln-Sm protein complex. Biomarker of nasopharynx carcinoma. [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Ubiquitous expression in bone marrow (RPKM 26.2), colon (RPKM 24.6) and 25 other tissues See more
    Orthologs
    mouse all
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    Genomic context

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    See SNRPF in Genome Data Viewer
    Location:
    12q23.1
    Exon count:
    4
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 12 NC_000012.12 (95858952..95866140)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 12 NC_060936.1 (95835373..95842560)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 12 NC_000012.11 (96252730..96259918)

    Chromosome 12 - NC_000012.12Genomic Context describing neighboring genes Neighboring gene RNA, U6 small nuclear 247, pseudogene Neighboring gene SNRPF divergent transcript Neighboring gene long intergenic non-protein coding RNA 2410 Neighboring gene MPRA-validated peak1901 silencer Neighboring gene melanoma risk locus-associated MPRA allelic enhancer 12:96243941 Neighboring gene melanoma risk locus-associated MPRA allelic enhancer 12:96244864 Neighboring gene melanoma risk locus-associated MPRA allelic enhancer 12:96249988 Neighboring gene H3K27ac hESC enhancer GRCh37_chr12:96252439-96253054 Neighboring gene coiled-coil domain containing 38 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:96301545-96302055 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:96302056-96302565 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr12:96322471-96322972 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:96350128-96350641 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:96350642-96351154 Neighboring gene amidohydrolase domain containing 1 Neighboring gene AMDHD1 eExon liver enhancer

    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. Direct cross-linking of snRNP proteins F and 70K to snRNAs by ultra-violet radiation in situ. Woppmann A, et al. Nucleic Acids Res, 1988 Dec 9. PMID 2974540, Free PMC Article
    2. Cytoplasmic assembly of small nuclear ribonucleoprotein particles from 6 S and 20 S RNA-free intermediates in L929 mouse fibroblasts. Sauterer RA, et al. J Biol Chem, 1990 Jan 15. PMID 1688550
    3. Electron microscopy of assembly intermediates of the snRNP core: morphological similarities between the RNA-free (E.F.G) protein heteromer and the intact snRNP core. Plessel G, et al. J Mol Biol, 1997 Jan 17. PMID 9020971
    4. Cytoplasmic assembly and nuclear accumulation of mature small nuclear ribonucleoprotein particles. Feeney RJ, et al. J Biol Chem, 1989 Apr 5. PMID 2522439
    5. Structure of a key intermediate of the SMN complex reveals Gemin2's crucial function in snRNP assembly. Zhang R, et al. Cell, 2011 Aug 5. PMID 21816274, Free PMC Article

    See all (155) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Phenotypes

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    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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    Protein interactions

    Protein Gene Interaction Pubs
    Rev rev HIV-1 Rev interacting protein, small nuclear ribonucleoprotein polypeptide F (SNRPF), is identified by the in-vitro binding experiments involving cytosolic or nuclear extracts from HeLa cells PubMed

    Go to the HIV-1, Human Interaction Database

    Pathways from PubChem

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    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables RNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables RNA binding IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in 7-methylguanosine cap hypermethylation NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    involved_in RNA splicing IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in U2-type prespliceosome assembly NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    involved_in mRNA splicing, via spliceosome IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in mRNA splicing, via spliceosome IC
    Inferred by Curator
    more info
    		 PubMed 
    involved_in mRNA splicing, via spliceosome IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in mRNA splicing, via spliceosome NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    involved_in spliceosomal snRNP assembly IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Component Evidence Code Pubs
    part_of SMN-Sm protein complex IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    part_of U1 snRNP IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of U1 snRNP IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    part_of U1 snRNP IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    part_of U1 snRNP NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    part_of U12-type spliceosomal complex IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    part_of U2 snRNP NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    part_of U2-type catalytic step 2 spliceosome IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    part_of U2-type precatalytic spliceosome IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    part_of U2-type spliceosomal complex IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    part_of U4 snRNP IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    part_of U4 snRNP NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    part_of U4/U6 x U5 tri-snRNP complex IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    part_of U4/U6 x U5 tri-snRNP complex IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    part_of U5 snRNP NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    part_of U7 snRNP IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    part_of catalytic step 2 spliceosome IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of catalytic step 2 spliceosome IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in cytosol IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in cytosol TAS
    Traceable Author Statement
    more info
    		  
    part_of methylosome IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in nucleoplasm TAS
    Traceable Author Statement
    more info
    		  
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in nucleus NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    part_of pICln-Sm protein complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of pICln-Sm protein complex IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    part_of small nuclear ribonucleoprotein complex IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    part_of spliceosomal complex IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    part_of spliceosomal complex IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    part_of spliceosomal complex NAS
    Non-traceable Author Statement
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    small nuclear ribonucleoprotein F
    Names
    sm protein F

    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_001394209.1 → NP_001381138.1  small nuclear ribonucleoprotein F isoform 2

      Status: VALIDATED

      Source sequence(s)
      AC090001
      Conserved Domains (1) summary
      cl00259
      Location:6 → 43
      Sm_like; Sm and related proteins

    2. NM_003095.5 → NP_003086.1  small nuclear ribonucleoprotein F isoform 1

      See identical proteins and their annotated locations for NP_003086.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
      Source sequence(s)
      AC090001
      Consensus CDS
      CCDS9055.1
      UniProtKB/Swiss-Prot
      A2VCR2, B2R498, P62306, Q15356, Q6IBQ1, Q6P4I0
      Related
      ENSP00000266735.5, ENST00000266735.10
      Conserved Domains (1) summary
      cd01722
      Location:6 → 74
      Sm_F; Sm protein F

    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_000012.12 Reference GRCh38.p14 Primary Assembly

      Range
      95858952..95866140
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060936.1 Alternate T2T-CHM13v2.0

      Range
      95835373..95842560
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    P62306.1 GenPept UniProtKB/Swiss-Prot:P62306

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