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Aliases for SNRPF Gene

Aliases for SNRPF Gene

  • Small Nuclear Ribonucleoprotein Polypeptide F 2 3
  • Sm Protein F 3 4
  • SnRNP-F 3 4
  • Sm-F 3 4
  • SMF 3 4
  • Small Nuclear Ribonucleoprotein F 3
  • PBSCF 4

External Ids for SNRPF Gene

Summaries for SNRPF Gene

GeneCards Summary for SNRPF Gene

SNRPF (Small Nuclear Ribonucleoprotein Polypeptide F) is a Protein Coding gene. Among its related pathways are Gene Expression and Spliceosome. GO annotations related to this gene include RNA binding. An important paralog of this gene is LSM6.

UniProtKB/Swiss-Prot for SNRPF Gene

  • Core component of the spliceosomal U1, U2, U4 and U5 small nuclear ribonucleoproteins (snRNPs), the building blocks of the spliceosome. Thereby, plays an important role in the splicing of cellular pre-mRNAs. Most spliceosomal snRNPs contain a common set of Sm proteins SNRPB, SNRPD1, SNRPD2, SNRPD3, SNRPE, SNRPF and SNRPG that assemble in an heptameric protein ring on the Sm site of the small nuclear RNA to form the core snRNP. As part of the U7 snRNP it is involved in histone 3-end processing.

Gene Wiki entry for SNRPF Gene

No data available for Entrez Gene Summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SNRPF Gene

Genomics for SNRPF Gene

Genomic Location for SNRPF Gene

Start:
95,858,928 bp from pter
End:
95,903,828 bp from pter
Size:
44,901 bases
Orientation:
Plus strand

Genomic View for SNRPF Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for SNRPF Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SNRPF Gene

Regulatory Elements for SNRPF Gene

Proteins for SNRPF Gene

  • Protein details for SNRPF Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P62306-RUXF_HUMAN
    Recommended name:
    Small nuclear ribonucleoprotein F
    Protein Accession:
    P62306
    Secondary Accessions:
    • A2VCR2
    • B2R498
    • Q15356
    • Q6IBQ1
    • Q6P4I0

    Protein attributes for SNRPF Gene

    Size:
    86 amino acids
    Molecular mass:
    9725 Da
    Quaternary structure:
    • U1 snRNP is for instance composed of the 7 core Sm proteins SNRPB, SNRPD1, SNRPD2, SNRPD3, SNRPE, SNRPF and SNRPG that assemble in an heptameric protein ring on the Sm site of the small nuclear RNA to form the core snRNP, and at least three U1 snRNP-specific proteins SNRNP70/U1-70K, SNRPA/U1-A and SNRPC/U1-C. Component of the U11/U12 snRNPs that are part of the U12-type spliceosome. Component of the heptameric ring U7 snRNP complex, or U7 Sm protein core complex, at least composed of LSM10, LSM11, SNRPB, SNRPD3, SNRPE, SNRPF, SNRPG and U7 snRNA. Part of the SMN-Sm complex that contains SMN1, GEMIN2/SIP1, DDX20/GEMIN3, GEMIN4, GEMIN5, GEMIN6, GEMIN7, GEMIN8, STRAP/UNRIP and the Sm proteins SNRPB, SNRPD1, SNRPD2, SNRPD3, SNRPE, SNRPF and SNRPG; catalyzes core snRNPs assembly. Forms a 6S pICln-Sm complex composed of CLNS1A/pICln, SNRPD1, SNRPD2, SNRPE, SNRPF and SNRPG; ring-like structure where CLNS1A/pICln mimics additional Sm proteins and which is unable to assemble into the core snRNP.

    Three dimensional structures from OCA and Proteopedia for SNRPF Gene

neXtProt entry for SNRPF Gene

Proteomics data for SNRPF Gene at MOPED

Post-translational modifications for SNRPF Gene

  • Modification sites at PhosphoSitePlus
  • Ubiquitination at Lys8, Lys17, and Lys24

Other Protein References for SNRPF Gene

ENSEMBL proteins:
Reactome Protein details:
REFSEQ proteins:

No data available for DME Specific Peptides for SNRPF Gene

Domains for SNRPF Gene

Protein Domains for SNRPF Gene

UniProtKB/Swiss-Prot:

RUXF_HUMAN
Family:
  • Belongs to the snRNP Sm proteins family. SmF/LSm6 subfamily.:
    • P62306
genes like me logo Genes that share domains with SNRPF: view

No data available for Gene Families for SNRPF Gene

Function for SNRPF Gene

Molecular function for SNRPF Gene

UniProtKB/Swiss-Prot Function: Core component of the spliceosomal U1, U2, U4 and U5 small nuclear ribonucleoproteins (snRNPs), the building blocks of the spliceosome. Thereby, plays an important role in the splicing of cellular pre-mRNAs. Most spliceosomal snRNPs contain a common set of Sm proteins SNRPB, SNRPD1, SNRPD2, SNRPD3, SNRPE, SNRPF and SNRPG that assemble in an heptameric protein ring on the Sm site of the small nuclear RNA to form the core snRNP. As part of the U7 snRNP it is involved in histone 3-end processing.

Gene Ontology (GO) - Molecular Function for SNRPF Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003723 RNA binding IMP 7744013
GO:0005515 protein binding IPI 15231747
genes like me logo Genes that share ontologies with SNRPF: view
genes like me logo Genes that share phenotypes with SNRPF: view

miRNA for SNRPF Gene

miRTarBase miRNAs that target SNRPF

No data available for Enzyme Numbers (IUBMB) , Animal Models , Transcription Factor Targeting and HOMER Transcription for SNRPF Gene

Localization for SNRPF Gene

Subcellular locations from UniProtKB/Swiss-Prot for SNRPF Gene

Cytoplasm, cytosol. Nucleus. Note=SMN-mediated assembly into core snRNPs occurs in the cytosol before SMN-mediated transport to the nucleus to be included in spliceosomes.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for SNRPF Gene COMPARTMENTS Subcellular localization image for SNRPF gene
Compartment Confidence
nucleus 5
cytosol 4
extracellular 3

Gene Ontology (GO) - Cellular Components for SNRPF Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus --
GO:0005654 nucleoplasm TAS --
GO:0005681 spliceosomal complex IDA 7744013
GO:0005683 U7 snRNP IDA 11574479
GO:0005685 U1 snRNP IDA 21113136
genes like me logo Genes that share ontologies with SNRPF: view

Pathways for SNRPF Gene

genes like me logo Genes that share pathways with SNRPF: view

Gene Ontology (GO) - Biological Process for SNRPF Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000387 spliceosomal snRNP assembly TAS --
GO:0000398 mRNA splicing, via spliceosome TAS --
GO:0006366 transcription from RNA polymerase II promoter TAS --
GO:0006369 termination of RNA polymerase II transcription TAS --
GO:0006396 RNA processing --
genes like me logo Genes that share ontologies with SNRPF: view

Transcripts for SNRPF Gene

Unigene Clusters for SNRPF Gene

Small nuclear ribonucleoprotein polypeptide F:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for SNRPF Gene

No ASD Table

Relevant External Links for SNRPF Gene

GeneLoc Exon Structure for
SNRPF
ECgene alternative splicing isoforms for
SNRPF

Expression for SNRPF Gene

mRNA expression in normal human tissues for SNRPF Gene

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, MOPED, and MaxQB for SNRPF Gene

SOURCE GeneReport for Unigene cluster for SNRPF Gene Hs.105465

genes like me logo Genes that share expressions with SNRPF: view

Orthologs for SNRPF Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for SNRPF Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia SNRPF 36
  • 100 (n)
  • 100 (a)
SNRPF 37
  • 39 (a)
OneToOne
cow
(Bos Taurus)
Mammalia SNRPF 36
  • 94.19 (n)
  • 100 (a)
SNRPF 37
  • 100 (a)
OneToOne
dog
(Canis familiaris)
Mammalia SNRPF 36
  • 93.02 (n)
  • 100 (a)
SNRPF 37
  • 77 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Snrpf 36
  • 90.31 (n)
  • 100 (a)
Snrpf 16
Snrpf 37
  • 100 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia SNRPF 37
  • 75 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia SNRPF 37
  • 100 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Snrpf 36
  • 93.41 (n)
  • 100 (a)
chicken
(Gallus gallus)
Aves SNRPF 36
  • 84.11 (n)
  • 100 (a)
SNRPF 37
  • 77 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia SNRPF 37
  • 97 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia snrpf 36
  • 82.56 (n)
  • 100 (a)
Str.2969 36
zebrafish
(Danio rerio)
Actinopterygii snrpf 36
  • 80 (n)
  • 97.33 (a)
snrpf 37
  • 95 (a)
OneToOne
fruit fly
(Drosophila melanogaster)
Insecta SmF 37
  • 75 (a)
OneToOne
DebB 38
  • 79 (a)
worm
(Caenorhabditis elegans)
Secernentea snr-5 37
  • 66 (a)
OneToOne
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes SMX3 37
  • 49 (a)
OneToMany
SMX3 39
Alicante grape
(Vitis vinifera)
eudicotyledons Vvi.8951 36
soybean
(Glycine max)
eudicotyledons Gma.8349 36
bread mold
(Neurospora crassa)
Ascomycetes NCU01614 36
  • 58.22 (n)
  • 59.15 (a)
fission yeast
(Schizosaccharomyces pombe)
Schizosaccharomycetes smf1 36
  • 63.81 (n)
  • 68.57 (a)
sea squirt
(Ciona intestinalis)
Ascidiacea Cin.4735 36
sea squirt
(Ciona savignyi)
Ascidiacea CSA.865 37
  • 84 (a)
OneToOne
Species with no ortholog for SNRPF:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for SNRPF Gene

ENSEMBL:
Gene Tree for SNRPF (if available)
TreeFam:
Gene Tree for SNRPF (if available)

Paralogs for SNRPF Gene

Paralogs for SNRPF Gene

genes like me logo Genes that share paralogs with SNRPF: view

Variants for SNRPF Gene

Sequence variations from dbSNP and Humsavar for SNRPF Gene

SNP ID Clin Chr 12 pos Sequence Context AA Info Type MAF
rs703693 -- 95,866,214(-) AGTTC(A/C/G/T)GTGAG utr-variant-3-prime
rs1036430 -- 95,866,538(-) TAGCT(A/G)CAATA downstream-variant-500B
rs1052953 -- 95,866,086(+) TGGGG(A/G)ATTTT utr-variant-3-prime
rs1054921 -- 95,858,372(-) CCCAC(G/T)ACCCT upstream-variant-2KB
rs1054922 -- 95,858,274(-) ATTTC(C/G)TCTGT upstream-variant-2KB

Structural Variations from Database of Genomic Variants (DGV) for SNRPF Gene

Variant ID Type Subtype PubMed ID
nsv7234 OTHER Inversion 18451855
nsv455693 CNV Loss 19166990

Relevant External Links for SNRPF Gene

HapMap Linkage Disequilibrium report
SNRPF

Disorders for SNRPF Gene

No disorders were found for SNRPF Gene.

No data available for UniProtKB/Swiss-Prot for SNRPF Gene

Publications for SNRPF Gene

  1. snRNP Sm proteins share two evolutionarily conserved sequence motifs which are involved in Sm protein-protein interactions. (PMID: 7744013) Hermann H. … Luehrmann R. (EMBO J. 1995) 2 3 4
  2. Purified U7 snRNPs lack the Sm proteins D1 and D2 but contain Lsm10, a new 14 kDa Sm D1-like protein. (PMID: 11574479) Pillai R.S. … Mueller B. (EMBO J. 2001) 3 4
  3. Purification and characterization of native spliceosomes suitable for three-dimensional structural analysis. (PMID: 11991638) Jurica M.S. … Moore M.J. (RNA 2002) 3 4
  4. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard D.S. … Malek J. (Genome Res. 2004) 3 4
  5. An assembly chaperone collaborates with the SMN complex to generate spliceosomal SnRNPs. (PMID: 18984161) Chari A. … Fischer U. (Cell 2008) 3 4

Products for SNRPF Gene

Sources for SNRPF Gene

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