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    SYF2 SYF2 pre-mRNA splicing factor [ Homo sapiens (human) ]

    Gene ID: 25949, updated on 5-Mar-2024

    Summary

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    Official Symbol
    SYF2provided by HGNC
    Official Full Name
    SYF2 pre-mRNA splicing factorprovided by HGNC
    Primary source
    HGNC:HGNC:19824
    See related
    Ensembl:ENSG00000117614 MIM:607090; AllianceGenome:HGNC:19824
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    P29; CBPIN; NTC31; fSAP29
    Summary
    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]
    Expression
    Ubiquitous expression in bone marrow (RPKM 39.9), ovary (RPKM 37.8) and 25 other tissues See more
    Orthologs
    mouse all
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    Genomic context

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    See SYF2 in Genome Data Viewer
    Location:
    1p36.11
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (25222276..25232502, complement)
    RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (25058533..25068759, complement)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (25548767..25558993, complement)

    Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid active region 447 Neighboring gene uncharacterized LOC124903880 Neighboring gene IFITM3 pseudogene 7 Neighboring gene MPRA-validated peak125 silencer Neighboring gene ATAC-STARR-seq lymphoblastoid active region 448 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 449 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 450 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 451 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:25494962-25495462 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:25510715-25511215 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:25525541-25526040 Neighboring gene ReSE screen-validated silencer GRCh37_chr1:25528106-25528280 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr1:25554020-25555219 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 452 Neighboring gene uncharacterized LOC124903881 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:25559103-25560016 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:25565284-25566070 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:25566071-25566856 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:25572736-25573460 Neighboring gene H3K27ac hESC enhancer GRCh37_chr1:25573461-25574185 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:25580071-25580587 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr1:25580588-25581105 Neighboring gene arginine and serine rich protein 1 Neighboring gene H3K27ac hESC enhancer GRCh37_chr1:25593225-25593742 Neighboring gene uncharacterized LOC105376882 Neighboring gene Rh blood group D antigen

    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. Overexpression of SYF2 correlates with enhanced cell growth and poor prognosis in human hepatocellular carcinoma. Zhang S, et al. Mol Cell Biochem, 2015 Dec. PMID 26260052
    2. SYF2 is upregulated in human epithelial ovarian cancer and promotes cell proliferation. Yan S, et al. Tumour Biol, 2015 Jun. PMID 25623116
    3. Involvement of p29/SYF2/fSAP29/NTC31 in the progression of NSCLC via modulating cell proliferation. Liu Y, et al. Pathol Res Pract, 2015 Jan. PMID 25433998
    4. Upregulation of SYF2 in esophageal squamous cell carcinoma promotes tumor cell proliferation and predicts poor prognosis. Zhu J, et al. Tumour Biol, 2014 Oct. PMID 25034528
    5. Knocking down the expression of SYF2 inhibits the proliferation of glioma cells. Guo J, et al. Med Oncol, 2014 Aug. PMID 24985881

    See all (41) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. LncRNA HOST2 enhances gefitinib-resistance in non-small cell lung cancer by down-regulating miRNA-621.
      Title: LncRNA HOST2 enhances gefitinib-resistance in non-small cell lung cancer by down-regulating miRNA-621.
    2. These data identify Aletrnative splicing programs controlled by ZRANB2 and SYF2 and converging on ECT2, that participate to breast cancer cell resistance to doxorubicin.
      Title: ZRANB2 and SYF2-mediated splicing programs converging on ECT2 are involved in breast cancer cell resistance to doxorubicin.
    3. SYF2 might play a regulatory role in the proliferation of hepatocellular carcinoma cells.
      Title: Overexpression of SYF2 correlates with enhanced cell growth and poor prognosis in human hepatocellular carcinoma.
    4. we support that SYF2 might contribute to EOC progression via modulation of proliferation in EOC cells and would provide a novel therapeutic target of human epithelial ovarian cancer
      Title: SYF2 is upregulated in human epithelial ovarian cancer and promotes cell proliferation.
    5. p29 might contribute to the progression of non-small cell lung cancer by enhancing cell proliferation, implicating that targeting p29 might provide beneficial effects on the clinical therapy of non-small cell lung cancer
      Title: Involvement of p29/SYF2/fSAP29/NTC31 in the progression of NSCLC via modulating cell proliferation.
    6. SYF2 in glioma is essential for cell proliferation.
      Title: Knocking down the expression of SYF2 inhibits the proliferation of glioma cells.
    7. Our findings for the first time supported that SYF2 might play an important role in the regulation of esophageal squamous cell carcinoma proliferation
      Title: Upregulation of SYF2 in esophageal squamous cell carcinoma promotes tumor cell proliferation and predicts poor prognosis.
    8. novel function of p29 in the regulation of DNA replication checkpoint responses in Hela cells.
      Title: Silencing of p29 affects DNA damage responses with UV irradiation.
    Submit: New GeneRIF Correction

    Phenotypes

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    Find tests for this gene in the NIH Genetic Testing Registry (GTR)

    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

    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

    Clone Names

    • DKFZp564O2082

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables RNA binding HDA PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in embryonic organ development IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in gastrulation IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in in utero embryonic development IEA
    Inferred from Electronic Annotation
    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 mitotic G2 DNA damage checkpoint signaling IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in positive regulation of cell population proliferation IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    part_of Prp19 complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of U2-type catalytic step 2 spliceosome 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 nuclear speck IDA
    Inferred from Direct Assay
    more info
    		  
    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 post-mRNA release spliceosomal complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    pre-mRNA-splicing factor SYF2
    Names
    CCNDBP1 interactor
    GCIP-interacting protein p29
    SYF2 homolog, RNA splicing factor
    functional spliceosome-associated protein 29

    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_015484.5 → NP_056299.1  pre-mRNA-splicing factor SYF2 isoform 1

      See identical proteins and their annotated locations for NP_056299.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) encodes the longer isoform (1).
      Source sequence(s)
      AL031432, BC010862, DR155437
      Consensus CDS
      CCDS259.1
      UniProtKB/Swiss-Prot
      O95926, Q5TH73
      UniProtKB/TrEMBL
      B2RBX8
      Related
      ENSP00000236273.4, ENST00000236273.9
      Conserved Domains (1) summary
      pfam08231
      Location:90 → 238
      SYF2; SYF2 splicing factor

    2. NM_207170.4 → NP_997053.1  pre-mRNA-splicing factor SYF2 isoform 2

      See identical proteins and their annotated locations for NP_997053.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) lacks an alternate exon, compared to variant 1, but maintains the reading frame. The resulting protein (isoform 2) is shorter than isoform 1 and lacks both bipartite nuclear localization signals found in isoform 1.
      Source sequence(s)
      AL031432, BC010862, CV806249, DR155437
      Consensus CDS
      CCDS258.1
      UniProtKB/TrEMBL
      B2RBX8
      Related
      ENSP00000346330.3, ENST00000354361.3
      Conserved Domains (1) summary
      pfam08231
      Location:48 → 196
      SYF2; SYF2 splicing factor

    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_000001.11 Reference GRCh38.p14 Primary Assembly

      Range
      25222276..25232502 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060925.1 Alternate T2T-CHM13v2.0

      Range
      25058533..25068759 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    O95926.1 GenPept UniProtKB/Swiss-Prot:O95926

    Gene LinkOut

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

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