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Aliases for SNRPF Gene

Aliases for SNRPF Gene

  • Small Nuclear Ribonucleoprotein Polypeptide F 2 3 5
  • 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

Previous GeneCards Identifiers for SNRPF Gene

  • GC12P095685
  • GC12P096616
  • GC12P096185
  • GC12P094755
  • GC12P094776
  • GC12P093317
  • GC12P096252

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 Transport of the SLBP independent Mature mRNA and Processing of Capped Intronless Pre-mRNA. 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 a 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

Regulatory Elements for SNRPF Gene

Enhancers for SNRPF Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH12F095652 1 FANTOM5 Ensembl ENCODE 11.4 -205.2 -205196 2.4 ZNF133 FEZF1 YY1 ZNF302 ZNF207 FOS YY2 JUNB MXD4 REST ELK3 ENSG00000258313 ENSG00000258272 NTN4 SNRPF METAP2 LTA4H ENSG00000212448 GC12M095719
GH12F095198 1 FANTOM5 Ensembl ENCODE 11.3 -655.6 -655552 10.4 HDGF PKNOX1 ATF1 ARNT CREB3L1 SIN3A FEZF1 ZNF121 GATA2 KLF7 NDUFA12 SNRPF FGD6 VEZT GC12P095210 RPL14P4
GH12F095829 0.6 ENCODE 11.2 -29.3 -29261 0.1 NFIA HLF HMG20A RAD21 YY1 ATF3 CEBPA ZBTB33 SNRPF GC12M095850 GC12P095806
GH12F095941 0.2 ENCODE 10.7 +84.2 84239 2.4 PKNOX1 ZFP64 SIN3A ARID4B FEZF1 DMAP1 ZNF2 YY1 CBX5 ZNF263 AMDHD1 ELK3 NEDD1 METAP2 SNRPF USP44 HAL CCDC38 GC12P095914
GH12F096033 0.6 ENCODE 10.6 +176.3 176311 2.9 HDGF PKNOX1 ARNT CREB3L1 WRNIP1 ZFP64 ARID4B SIN3A FEZF1 DMAP1 NEDD1 ELK3 HAL PGAM1P5 LOC102723340 ENSG00000258272 ENSG00000258313 ENSG00000202368 ENSG00000257470 NTN4
- Elite enhancer/Elite enhancer-gene association Download Table
Download GeneHancer data dump

Enhancers around SNRPF on UCSC Golden Path with GeneCards custom track

Promoters for SNRPF Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00001466238 372 2601 HDGF CREB3L1 ARID4B SIN3A DMAP1 ZNF2 YY1 SLC30A9 ZNF207 FOS

Genomic Location for SNRPF Gene

Chromosome:
12
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

Genes around SNRPF on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SNRPF Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SNRPF Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence 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 a 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

Post-translational modifications for SNRPF Gene

  • Ubiquitination at Lys 17 and Lys 24
  • Modification sites at PhosphoSitePlus

Other Protein References for SNRPF Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for SNRPF Gene

Domains & Families for SNRPF Gene

Protein Domains for SNRPF Gene

Suggested Antigen Peptide Sequences for SNRPF Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

P62306

UniProtKB/Swiss-Prot:

RUXF_HUMAN :
  • Belongs to the snRNP Sm proteins family. SmF/LSm6 subfamily.
Family:
  • Belongs to the snRNP Sm proteins family. SmF/LSm6 subfamily.
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 a 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 9417867
genes like me logo Genes that share ontologies with SNRPF: view
genes like me logo Genes that share phenotypes with SNRPF: view

Animal Model Products

miRNA for SNRPF Gene

miRTarBase miRNAs that target SNRPF

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets 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
cytosol 5
nucleus 5
extracellular 3

Gene Ontology (GO) - Cellular Components for SNRPF Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA --
GO:0005654 nucleoplasm TAS --
GO:0005681 spliceosomal complex IEA,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 & Interactions for SNRPF Gene

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

Pathways by source for SNRPF Gene

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:0006369 termination of RNA polymerase II transcription TAS --
GO:0006397 mRNA processing IEA --
GO:0008334 histone mRNA metabolic process TAS --
genes like me logo Genes that share ontologies with SNRPF: view

No data available for SIGNOR curated interactions for SNRPF Gene

Transcripts for SNRPF Gene

Unigene Clusters for SNRPF Gene

Small nuclear ribonucleoprotein polypeptide F:
Representative Sequences:

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

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

Protein differential expression in normal tissues from HIPED for SNRPF Gene

This gene is overexpressed in Nasal epithelium (8.3) and Adrenal (7.8).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for SNRPF Gene



Protein tissue co-expression partners for SNRPF Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of SNRPF Gene:

SNRPF

SOURCE GeneReport for Unigene cluster for SNRPF Gene:

Hs.105465
genes like me logo Genes that share expression patterns with SNRPF: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues and mRNA Expression by UniProt/SwissProt for SNRPF Gene

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 34 35
  • 100 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia SNRPF 35
  • 100 (a)
OneToOne
cow
(Bos Taurus)
Mammalia SNRPF 34 35
  • 94.19 (n)
rat
(Rattus norvegicus)
Mammalia Snrpf 34
  • 93.41 (n)
dog
(Canis familiaris)
Mammalia SNRPF 34 35
  • 93.02 (n)
mouse
(Mus musculus)
Mammalia Snrpf 34 16 35
  • 90.31 (n)
oppossum
(Monodelphis domestica)
Mammalia SNRPF 35
  • 75 (a)
OneToOne
chicken
(Gallus gallus)
Aves SNRPF 34 35
  • 84.11 (n)
lizard
(Anolis carolinensis)
Reptilia SNRPF 35
  • 97 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia snrpf 34
  • 82.56 (n)
Str.2969 34
zebrafish
(Danio rerio)
Actinopterygii snrpf 34 35
  • 80 (n)
fruit fly
(Drosophila melanogaster)
Insecta DebB 36
  • 79 (a)
SmF 35
  • 75 (a)
OneToOne
worm
(Caenorhabditis elegans)
Secernentea snr-5 35
  • 66 (a)
OneToOne
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes SMX3 35 37
  • 49 (a)
OneToMany
soybean
(Glycine max)
eudicotyledons Gma.8349 34
Alicante grape
(Vitis vinifera)
eudicotyledons Vvi.8951 34
sea squirt
(Ciona savignyi)
Ascidiacea CSA.865 35
  • 84 (a)
OneToOne
fission yeast
(Schizosaccharomyces pombe)
Schizosaccharomycetes smf1 34
  • 63.81 (n)
bread mold
(Neurospora crassa)
Ascomycetes NCU01614 34
  • 58.22 (n)
sea squirt
(Ciona intestinalis)
Ascidiacea Cin.4735 34
Species where no ortholog for SNRPF was found in the sources mined by GeneCards:
  • 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
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 intron-variant, nc-transcript-variant, upstream-variant-2KB
rs1054922 -- 95,858,274(-) ATTTC(C/G)TCTGT intron-variant, nc-transcript-variant, upstream-variant-2KB
rs10689270 -- 95,860,872(+) TTTTT(-/TT/TTTTT)AGTGC intron-variant

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

Variant ID Type Subtype PubMed ID
nsv455693 CNV loss 19166990
nsv559834 CNV loss 21841781
nsv559835 CNV loss 21841781
nsv7234 OTHER inversion 18451855

Variation tolerance for SNRPF Gene

Residual Variation Intolerance Score: 55.9% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.15; 3.40% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for SNRPF Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
SNRPF

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SNRPF Gene

Disorders for SNRPF Gene

Relevant External Links for SNRPF

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
SNRPF

No disorders were found for SNRPF Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas 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 64
  2. Structure of the spliceosomal U4 snRNP core domain and its implication for snRNP biogenesis. (PMID: 21516107) Leung A.K. … Li J. (Nature 2011) 3 4 64
  3. An assembly chaperone collaborates with the SMN complex to generate spliceosomal SnRNPs. (PMID: 18984161) Chari A. … Fischer U. (Cell 2008) 3 4 64
  4. The human 18S U11/U12 snRNP contains a set of novel proteins not found in the U2-dependent spliceosome. (PMID: 15146077) Will C.L. … Luehrmann R. (RNA 2004) 3 4 64
  5. 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 64

Products for SNRPF Gene

Sources for SNRPF Gene

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