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    Gcfc2 GC-rich sequence DNA binding factor 2 [ Mus musculus (house mouse) ]

    Gene ID: 330361, updated on 11-Apr-2024

    Summary

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    Official Symbol
    Gcfc2provided by MGI
    Official Full Name
    GC-rich sequence DNA binding factor 2provided by MGI
    Primary source
    MGI:MGI:2141656
    See related
    Ensembl:ENSMUSG00000035125 AllianceGenome:MGI:2141656
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    GCF2; Tcf9; A130099G21
    Summary
    Predicted to enable DNA binding activity. Predicted to be involved in spliceosomal complex assembly. Predicted to act upstream of or within RNA splicing and mRNA processing. Predicted to be located in cytosol; nucleolus; and nucleoplasm. Predicted to be part of U2-type post-mRNA release spliceosomal complex. Predicted to be active in nucleus. Orthologous to human GCFC2 (GC-rich sequence DNA-binding factor 2). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Ubiquitous expression in CNS E11.5 (RPKM 5.4), limb E14.5 (RPKM 4.3) and 27 other tissues See more
    Orthologs
    human all
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    Genomic context

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    Location:
    6 C3; 6 35.81 cM
    Exon count:
    22
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 6 NC_000072.7 (81887543..81936079)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 6 NC_000072.6 (81910562..81959098)

    Chromosome 6 - NC_000072.7Genomic Context describing neighboring genes Neighboring gene RIKEN cDNA 1700009C05 gene Neighboring gene microRNA 7232 Neighboring gene microRNA 468 Neighboring gene STARR-positive B cell enhancer ABC_E9274 Neighboring gene mitochondrial ribosomal protein L19 Neighboring gene STARR-seq mESC enhancer starr_16423 Neighboring gene predicted gene, 38842 Neighboring gene predicted gene, 20383

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

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    Related articles in PubMed

    1. Knockdown of GC binding factor 2 by RNA interference inhibits invasion and migration of vascular smooth muscle cells. Ma Y, et al. Mol Med Rep, 2019 Aug. PMID 31257544, Free PMC Article
    2. Quantitative trait loci affecting the 3D skull shape and size in mouse and prioritization of candidate genes in-silico. Maga AM, et al. Front Physiol, 2015. PMID 25859222, Free PMC Article
    3. Phosphoproteomic analysis of the developing mouse brain. Ballif BA, et al. Mol Cell Proteomics, 2004 Nov. PMID 15345747
    4. An atlas of combinatorial transcriptional regulation in mouse and man. Ravasi T, et al. Cell, 2010 Mar 5. PMID 20211142, Free PMC Article
    5. A systems approach reveals that the myogenesis genome network is regulated by the transcriptional repressor RP58. Yokoyama S, et al. Dev Cell, 2009 Dec. PMID 20059953, Free PMC Article

    See all (15) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. The inhibition of vascular smooth muscle cells proliferation and migration by knockdown of GCF2 by RNA interference was mediated by the PI3K/AKT signaling pathway.
      Title: Knockdown of GC binding factor 2 by RNA interference inhibits invasion and migration of vascular smooth muscle cells.
    Submit: New GeneRIF Correction

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Targeted (1) 
    • Endonuclease-mediated (3) 

    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 MGI

    Function Evidence Code Pubs
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within RNA splicing IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within mRNA processing IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in mRNA splicing, via spliceosome IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in spliceosomal complex assembly ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    part_of U2-type post-mRNA release spliceosomal complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleolus ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    intron Large complex component GCFC2
    Names
    GCF
    TCF-9
    transcription factor 9

    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_177884.4 → NP_808552.2  intron Large complex component GCFC2

      See identical proteins and their annotated locations for NP_808552.2

      Status: VALIDATED

      Source sequence(s)
      AC129024
      Consensus CDS
      CCDS20260.1
      UniProtKB/Swiss-Prot
      Q3UWF7, Q8BK44, Q8BKT3
      Related
      ENSMUSP00000035644.5, ENSMUST00000043195.11
      Conserved Domains (1) summary
      pfam07842
      Location:456 → 670
      GCFC; GC-rich sequence DNA-binding factor-like protein

    RNA

    1. NR_177923.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AC129024

    2. NR_177924.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AC129024
      Related
      ENSMUST00000152996.8

    3. NR_177925.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AC129024

    4. NR_177926.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AC129024

    5. NR_177927.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AC129024

    6. NR_177928.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AC129024

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000072.7 Reference GRCm39 C57BL/6J

      Range
      81887543..81936079
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_030255482.1 → XP_030111342.1  intron Large complex component GCFC2 isoform X1

      Conserved Domains (1) summary
      pfam07842
      Location:266 → 480
      GCFC; GC-rich sequence DNA-binding factor-like protein

    2. XM_030255483.2 → XP_030111343.1  intron Large complex component GCFC2 isoform X4

      UniProtKB/TrEMBL
      S4R198

    3. XM_011241391.1 → XP_011239693.1  intron Large complex component GCFC2 isoform X2

      Conserved Domains (1) summary
      pfam07842
      Location:253 → 467
      GCFC; GC-rich sequence DNA-binding factor-like protein

    RNA

    1. XR_003956217.2 RNA Sequence

    2. XR_003956218.2 RNA Sequence

    3. XR_377475.4 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8BKT3.2 GenPept UniProtKB/Swiss-Prot:Q8BKT3

    Gene LinkOut

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

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