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

Gene ID: 6636, updated on 5-Mar-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, Apr 2022]
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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Location:
12q23.1
Exon count:
4
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 12 NC_000012.12 (95858952..95866140)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 12 NC_060936.1 (95835373..95842560)
105.20220307 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. snRNP Sm proteins share two evolutionarily conserved sequence motifs which are involved in Sm protein-protein interactions. Hermann H, et al. EMBO J, 1995 May 1. PMID 7744013, Free PMC Article
  5. Cytoplasmic assembly and nuclear accumulation of mature small nuclear ribonucleoprotein particles. Feeney RJ, et al. J Biol Chem, 1989 Apr 5. PMID 2522439

See all (137) 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)

Genotypes

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_2023_10

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

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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