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Aliases for SYF2 Gene

Aliases for SYF2 Gene

  • SYF2 Pre-MRNA Splicing Factor 2 3 5
  • Functional Spliceosome-Associated Protein 29 2 3
  • CCNDBP1 Interactor 2 3
  • CBPIN 3 4
  • P29 3 4
  • SYF2 Homolog, RNA Splicing Factor (S. Cerevisiae) 2
  • SYF2 Homolog, RNA Splicing Factor 3
  • Pre-MRNA-Splicing Factor SYF2 3
  • GCIP-Interacting Protein P29 3
  • CCNDBP1-Interactor 4
  • FSAP29 3
  • GCIPIP 4
  • NTC31 3

External Ids for SYF2 Gene

Previous HGNC Symbols for SYF2 Gene

  • CBPIN

Previous GeneCards Identifiers for SYF2 Gene

  • GC01M025296
  • GC01M025421
  • GC01M025548
  • GC01M023802

Summaries for SYF2 Gene

Entrez Gene Summary for SYF2 Gene

  • This gene encodes a nuclear protein that interacts with cyclin D-type binding-protein 1, which is thought to be a cell cycle regulator at the G1/S transition. Alternate transcriptional splice variants, encoding different isoforms, have been characterized. [provided by RefSeq, Jul 2008]

GeneCards Summary for SYF2 Gene

SYF2 (SYF2 Pre-MRNA Splicing Factor) is a Protein Coding gene. Among its related pathways are mRNA Splicing - Major Pathway and Gene Expression. GO annotations related to this gene include poly(A) RNA binding.

UniProtKB/Swiss-Prot for SYF2 Gene

  • May be involved in pre-mRNA splicing.

No data available for Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SYF2 Gene

Genomics for SYF2 Gene

Regulatory Elements for SYF2 Gene

Enhancers for SYF2 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
GH01F026121 1 FANTOM5 Ensembl ENCODE 33 -892.7 -892711 7.7 HDGF PKNOX1 ARNT CREB3L1 SIN3A FEZF1 ZNF2 ZNF302 FOS KLF13 TRIM63 SYF2 HMGN2 FAM110D PDIK1L ENSG00000261349 ZNF593 ENSG00000236782 RPL17P9 LOC101928324
GH01F025995 0.2 ENCODE 31.4 -765.4 -765432 4.4 CREB3L1 ZFP64 FEZF1 DMAP1 YY1 SLC30A9 ZNF416 ZNF143 ZNF548 ZNF263 HMGN2 SYF2 ENSG00000207302 RPL17P9 LOC101928324 ENSG00000261349 FAM110D ENSG00000231953 RPL39P7 PAFAH2
GH01F025428 1.1 ENCODE 30 -198.0 -198047 3.5 HDGF PKNOX1 CREB3L1 ARID4B SIN3A DMAP1 ZNF2 ZNF143 ZNF207 FOS RHCE SYF2 RHD TMEM57
GH01F025236 1.5 FANTOM5 Ensembl ENCODE 25.2 -6.5 -6476 5.6 HDGF PKNOX1 ARID4B SIN3A DMAP1 ZNF2 YY1 CBX5 ZNF143 ZNF207 SYF2 SDHDP6 RHD ENSG00000261349 EXTL1 TMEM57 ENSG00000272432 GC01P025232
GH01F024908 1.3 FANTOM5 Ensembl ENCODE 24.5 +312.8 312772 22.8 MLX CREB3L1 YBX1 FEZF1 DMAP1 YY1 SLC30A9 ZNF143 ZNF263 SP3 RUNX3 ENSG00000231953 SYF2 ENSG00000261025 ENSG00000207302 ENSG00000230228 PNRC2 RPL39P7 RCAN3 RNU6-1208P
- Elite enhancer/Elite enhancer-gene association Download Table
Download GeneHancer data dump

Enhancers around SYF2 on UCSC Golden Path with GeneCards custom track

Promoters for SYF2 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000280415 -78 2001 HDGF PKNOX1 CREB3L1 WRNIP1 ARID4B SIN3A DMAP1 ZNF2 YY1 FOS

Genomic Location for SYF2 Gene

Chromosome:
1
Start:
25,222,276 bp from pter
End:
25,232,522 bp from pter
Size:
10,247 bases
Orientation:
Minus strand

Genomic View for SYF2 Gene

Genes around SYF2 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SYF2 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SYF2 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SYF2 Gene

Proteins for SYF2 Gene

  • Protein details for SYF2 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    O95926-SYF2_HUMAN
    Recommended name:
    Pre-mRNA-splicing factor SYF2
    Protein Accession:
    O95926
    Secondary Accessions:
    • Q5TH73

    Protein attributes for SYF2 Gene

    Size:
    243 amino acids
    Molecular mass:
    28722 Da
    Quaternary structure:
    • Identified in the spliceosome C complex. Interacts with CCNDBP1.
    SequenceCaution:
    • Sequence=CAI21417.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};

    Alternative splice isoforms for SYF2 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for SYF2 Gene

Post-translational modifications for SYF2 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for SYF2 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for SYF2 Gene

Domains & Families for SYF2 Gene

Protein Domains for SYF2 Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for SYF2 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

O95926

UniProtKB/Swiss-Prot:

SYF2_HUMAN :
  • Belongs to the SYF2 family.
Family:
  • Belongs to the SYF2 family.
genes like me logo Genes that share domains with SYF2: view

No data available for Gene Families for SYF2 Gene

Function for SYF2 Gene

Molecular function for SYF2 Gene

UniProtKB/Swiss-Prot Function:
May be involved in pre-mRNA splicing.

Gene Ontology (GO) - Molecular Function for SYF2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 25416956
GO:0044822 poly(A) RNA binding IDA 22658674
genes like me logo Genes that share ontologies with SYF2: view
genes like me logo Genes that share phenotypes with SYF2: view

Animal Model Products

Inhibitory RNA Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for SYF2 Gene

Localization for SYF2 Gene

Subcellular locations from UniProtKB/Swiss-Prot for SYF2 Gene

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for SYF2 Gene COMPARTMENTS Subcellular localization image for SYF2 gene
Compartment Confidence
nucleus 5
cytosol 2

Gene Ontology (GO) - Cellular Components for SYF2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000974 Prp19 complex IBA --
GO:0005634 nucleus NAS 11118353
GO:0005681 spliceosomal complex IEA --
GO:0071010 prespliceosome IBA --
GO:0071012 catalytic step 1 spliceosome IBA --
genes like me logo Genes that share ontologies with SYF2: view

Pathways & Interactions for SYF2 Gene

genes like me logo Genes that share pathways with SYF2: view

Pathways by source for SYF2 Gene

Gene Ontology (GO) - Biological Process for SYF2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000398 mRNA splicing, via spliceosome IC 11991638
GO:0001701 in utero embryonic development IEA --
GO:0006397 mRNA processing IEA --
GO:0007095 mitotic G2 DNA damage checkpoint IEA --
GO:0007369 gastrulation IEA --
genes like me logo Genes that share ontologies with SYF2: view

No data available for SIGNOR curated interactions for SYF2 Gene

Transcripts for SYF2 Gene

Unigene Clusters for SYF2 Gene

SYF2 homolog, RNA splicing factor (S. cerevisiae):
Representative Sequences:

Inhibitory RNA Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for SYF2 Gene

ExUns: 1a · 1b ^ 2a · 2b · 2c ^ 3 ^ 4 ^ 5 ^ 6a · 6b ^ 7a · 7b
SP1: - -
SP2: - - -
SP3: -
SP4: -

Relevant External Links for SYF2 Gene

GeneLoc Exon Structure for
SYF2
ECgene alternative splicing isoforms for
SYF2

Expression for SYF2 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for SYF2 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for SYF2 Gene

This gene is overexpressed in CD8 Tcells (9.4), Testis (8.7), and Fetal Brain (8.7).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for SYF2 Gene



Protein tissue co-expression partners for SYF2 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of SYF2 Gene:

SYF2

SOURCE GeneReport for Unigene cluster for SYF2 Gene:

Hs.20013

mRNA Expression by UniProt/SwissProt for SYF2 Gene:

O95926-SYF2_HUMAN
Tissue specificity: Abundantly expressed in the heart, skeletal muscle and kidney. Expressed at lower level other tissues.
genes like me logo Genes that share expression patterns with SYF2: view

Primer Products

No data available for mRNA differential expression in normal tissues for SYF2 Gene

Orthologs for SYF2 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for SYF2 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia SYF2 34 35
  • 98.35 (n)
dog
(Canis familiaris)
Mammalia -- 35
  • 93 (a)
OneToMany
SYF2 34
  • 90.91 (n)
-- 35
  • 87 (a)
OneToMany
cow
(Bos Taurus)
Mammalia SYF2 34 35
  • 91.49 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia SYF2 35
  • 90 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia SYF2 35
  • 87 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Syf2 34 16 35
  • 83.61 (n)
rat
(Rattus norvegicus)
Mammalia Syf2 34
  • 83.4 (n)
chicken
(Gallus gallus)
Aves SYF2 34 35
  • 77.96 (n)
lizard
(Anolis carolinensis)
Reptilia -- 35
  • 86 (a)
OneToMany
-- 35
  • 77 (a)
OneToMany
tropical clawed frog
(Silurana tropicalis)
Amphibia syf2 34
  • 73.96 (n)
Str.6933 34
African clawed frog
(Xenopus laevis)
Amphibia MGC53740 34
zebrafish
(Danio rerio)
Actinopterygii syf2 34 35
  • 70.76 (n)
hmzeh0031 34
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.8518 34
fruit fly
(Drosophila melanogaster)
Insecta CG12343 34 35
  • 57.24 (n)
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP010515 34
  • 55.25 (n)
worm
(Caenorhabditis elegans)
Secernentea K04G7.11 34 35
  • 57.26 (n)
thale cress
(Arabidopsis thaliana)
eudicotyledons AT2G16860 34
  • 50.64 (n)
rice
(Oryza sativa)
Liliopsida Os06g0711600 34
  • 50.56 (n)
sea squirt
(Ciona savignyi)
Ascidiacea CSA.10576 35
  • 50 (a)
OneToOne
fission yeast
(Schizosaccharomyces pombe)
Schizosaccharomycetes syf2 34
  • 48.29 (n)
bread mold
(Neurospora crassa)
Ascomycetes NCU00361 34
  • 42.48 (n)
Species where no ortholog for SYF2 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • 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)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for SYF2 Gene

ENSEMBL:
Gene Tree for SYF2 (if available)
TreeFam:
Gene Tree for SYF2 (if available)

Paralogs for SYF2 Gene

Pseudogenes.org Pseudogenes for SYF2 Gene

genes like me logo Genes that share paralogs with SYF2: view

No data available for Paralogs for SYF2 Gene

Variants for SYF2 Gene

Sequence variations from dbSNP and Humsavar for SYF2 Gene

SNP ID Clin Chr 01 pos Sequence Context AA Info Type
rs1045554 -- 25,223,246(-) GTTTA(C/T)AGAAG utr-variant-3-prime
rs10903036 -- 25,229,181(+) ATACA(C/T)CTTGC intron-variant
rs111438665 -- 25,224,843(+) CTATC(C/T)ATCCC intron-variant
rs111540714 -- 25,226,863(+) GTAAT(C/G)CTAGC intron-variant
rs111662912 -- 25,227,402(+) ACACA(-/CA)AATAC intron-variant

Structural Variations from Database of Genomic Variants (DGV) for SYF2 Gene

Variant ID Type Subtype PubMed ID
dgv132n100 CNV gain 25217958
dgv133n100 CNV gain 25217958
dgv134n100 CNV gain 25217958
esv3576582 CNV gain 25503493
nsv1160388 CNV duplication 26073780
nsv475560 CNV novel sequence insertion 20440878
nsv7187 CNV insertion 18451855

Variation tolerance for SYF2 Gene

Residual Variation Intolerance Score: 63.1% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 3.32; 53.42% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for SYF2 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
SYF2

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SYF2 Gene

Disorders for SYF2 Gene

Relevant External Links for SYF2

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
SYF2

No disorders were found for SYF2 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for SYF2 Gene

Publications for SYF2 Gene

  1. p29, a novel GCIP-interacting protein, localizes in the nucleus. (PMID: 11118353) Chang M.-S. … Yang Y.-C. (Biochem. Biophys. Res. Commun. 2000) 2 3 4 64
  2. The DNA sequence and biological annotation of human chromosome 1. (PMID: 16710414) Gregory S.G. … Bentley D.R. (Nature 2006) 3 4 64
  3. 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
  4. Purification and characterization of native spliceosomes suitable for three-dimensional structural analysis. (PMID: 11991638) Jurica M.S. … Moore M.J. (RNA 2002) 3 4 64
  5. Towards a catalog of human genes and proteins: sequencing and analysis of 500 novel complete protein coding human cDNAs. (PMID: 11230166) Wiemann S. … Poustka A. (Genome Res. 2001) 3 4 64

Products for SYF2 Gene

Sources for SYF2 Gene

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