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Tcf20 transcription factor 20 [ Mus musculus (house mouse) ]

Gene ID: 21411, updated on 3-Apr-2024

Summary

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Official Symbol
Tcf20provided by MGI
Official Full Name
transcription factor 20provided by MGI
Primary source
MGI:MGI:108399
See related
Ensembl:ENSMUSG00000041852 AllianceGenome:MGI:108399
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
SPBP; mKIAA0292; 2810438H08Rik
Summary
Enables DNA-binding transcription factor activity; transcription cis-regulatory region binding activity; and transcription coactivator activity. Acts upstream of or within positive regulation of transcription by RNA polymerase II. Located in nucleus. Is expressed in several structures, including branchial arch; central nervous system; early conceptus; genitourinary system; and sensory organ. Used to study Phelan-McDermid syndrome and autism spectrum disorder. Orthologous to human TCF20 (transcription factor 20). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in thymus adult (RPKM 10.0), testis adult (RPKM 9.7) and 28 other tissues See more
Orthologs
human all
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Genomic context

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Location:
15 E1; 15 38.73 cM
Exon count:
11
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 15 NC_000081.7 (82692648..82872304, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 15 NC_000081.6 (82808447..82988103, complement)

Chromosome 15 - NC_000081.7Genomic Context describing neighboring genes Neighboring gene cytochrome P450, family 2, subfamily d, member 41, pseudogene Neighboring gene cytochrome P450, family 2, subfamily d, polypeptide 26 Neighboring gene STARR-positive B cell enhancer ABC_E9917 Neighboring gene STARR-seq mESC enhancer starr_39304 Neighboring gene CapStarr-seq enhancer MGSCv37_chr15:82744980-82745163 Neighboring gene transforming growth factor beta regulated gene 3 Neighboring gene predicted gene, 20324 Neighboring gene CapStarr-seq enhancer MGSCv37_chr15:82805127-82805236 Neighboring gene microRNA 3080 Neighboring gene STARR-positive B cell enhancer mm9_chr15:82818187-82818488 Neighboring gene expressed sequence AW121686 Neighboring gene Nfat activating molecule with ITAM motif 1 Neighboring gene STARR-positive B cell enhancer ABC_E7401 Neighboring gene STARR-positive B cell enhancer ABC_E3149 Neighboring gene CapStarr-seq enhancer MGSCv37_chr15:82873210-82873393 Neighboring gene STARR-seq mESC enhancer starr_39309 Neighboring gene predicted gene, 32620 Neighboring gene STARR-positive B cell enhancer ABC_E3150 Neighboring gene predicted gene, 41366

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. The nuclear factor SPBP contains different functional domains and stimulates the activity of various transcriptional activators. Rekdal C, et al. J Biol Chem, 2000 Dec 22. PMID 10995766
  2. Cross-talk between different enhancer elements during mitogenic induction of the human stromelysin-1 gene. Kirstein M, et al. J Biol Chem, 1996 Jul 26. PMID 8663478
  3. Mutations in RAI1 associated with Smith-Magenis syndrome. Slager RE, et al. Nat Genet, 2003 Apr. PMID 12652298
  4. Interaction between the transcription factor SPBP and the positive cofactor RNF4. An interplay between protein binding zinc fingers. Lyngsø C, et al. J Biol Chem, 2000 Aug 25. PMID 10849425
  5. Disruption of MeCP2-TCF20 complex underlies distinct neurodevelopmental disorders. Zhou J, et al. Proc Natl Acad Sci U S A, 2022 Jan 25. PMID 35074918, Free PMC Article

See all (36) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Disruption of MeCP2-TCF20 complex underlies distinct neurodevelopmental disorders.
    Title: Disruption of MeCP2-TCF20 complex underlies distinct neurodevelopmental disorders.
  2. TCF20 dysfunction leads to cortical neurogenesis defects and autistic-like behaviors in mice.
    Title: TCF20 dysfunction leads to cortical neurogenesis defects and autistic-like behaviors in mice.
Submit: New GeneRIF Correction

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)

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
  
enables DNA-binding transcription factor activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
enables transcription cis-regulatory region binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables transcription coactivator activity IDA
Inferred from Direct Assay
more info
 PubMed 
Process Evidence Code Pubs
acts_upstream_of_or_within positive regulation of transcription by RNA polymerase II IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
located_in nuclear body 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 IDA
Inferred from Direct Assay
more info
 PubMed 
located_in nucleus ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
transcription factor 20
Names
SPRE-binding protein
TCF-20
nuclear factor SPBP
stromelysin PDGF responsive element binding protein transcription factor
stromelysin-1 PDGF-responsive element-binding protein

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_001114140.1 → NP_001107612.1  transcription factor 20 isoform a

    See identical proteins and their annotated locations for NP_001107612.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer variant and encodes the longer isoform (a).
    Source sequence(s)
    AC129563, AK122239, BC080855
    Consensus CDS
    CCDS49681.1
    UniProtKB/Swiss-Prot
    B9EHJ7, Q60792, Q9EPQ8
    UniProtKB/TrEMBL
    Q80U46
    Related
    ENSMUSP00000105136.3, ENSMUST00000109510.10
    Conserved Domains (1) summary
    cd15699
    Location:1733 → 1959
    ePHD_TCF20; Extended PHD finger (ePHD) found in transcription factor 20 (TCF-20)

  2. NM_001402838.1 → NP_001389767.1  transcription factor 20 isoform a

    Status: VALIDATED

    Source sequence(s)
    AC087902, AC129563
    UniProtKB/Swiss-Prot
    B9EHJ7, Q60792, Q9EPQ8
    Conserved Domains (1) summary
    cd15699
    Location:1733 → 1959
    ePHD_TCF20; Extended PHD finger (ePHD) found in transcription factor 20 (TCF-20)

  3. NM_013836.3 → NP_038864.3  transcription factor 20 isoform b

    See identical proteins and their annotated locations for NP_038864.3

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks an alternate exon in the 3' coding region, compared to variant 1. This results in a distinct C-terminus and shorter protein (isoform b), compared to isoform a.
    Source sequence(s)
    AC129563, BC080855
    Consensus CDS
    CCDS27693.1
    UniProtKB/TrEMBL
    Q80U46
    Related
    ENSMUSP00000048486.6, ENSMUST00000048966.7
    Conserved Domains (1) summary
    cd15699
    Location:1733 → 1959
    ePHD_TCF20; Extended PHD finger (ePHD) found in transcription factor 20 (TCF-20)

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_000081.7 Reference GRCm39 C57BL/6J

    Range
    82692648..82872304 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006520732.3 → XP_006520795.1  transcription factor 20 isoform X1

    See identical proteins and their annotated locations for XP_006520795.1

    UniProtKB/Swiss-Prot
    B9EHJ7, Q60792, Q9EPQ8
    UniProtKB/TrEMBL
    Q80U46
    Conserved Domains (1) summary
    cd15699
    Location:1733 → 1959
    ePHD_TCF20; Extended PHD finger (ePHD) found in transcription factor 20 (TCF-20)

  2. XM_006520733.2 → XP_006520796.1  transcription factor 20 isoform X1

    See identical proteins and their annotated locations for XP_006520796.1

    UniProtKB/Swiss-Prot
    B9EHJ7, Q60792, Q9EPQ8
    UniProtKB/TrEMBL
    Q80U46
    Conserved Domains (1) summary
    cd15699
    Location:1733 → 1959
    ePHD_TCF20; Extended PHD finger (ePHD) found in transcription factor 20 (TCF-20)

  3. XM_011245553.4 → XP_011243855.1  transcription factor 20 isoform X3

    See identical proteins and their annotated locations for XP_011243855.1

    UniProtKB/TrEMBL
    Q80U46
    Conserved Domains (1) summary
    cd15699
    Location:1733 → 1959
    ePHD_TCF20; Extended PHD finger (ePHD) found in transcription factor 20 (TCF-20)

  4. XM_011245552.4 → XP_011243854.1  transcription factor 20 isoform X2

    UniProtKB/TrEMBL
    Q80U46
    Conserved Domains (1) summary
    cd15699
    Location:1733 → 1959
    ePHD_TCF20; Extended PHD finger (ePHD) found in transcription factor 20 (TCF-20)

  5. XM_011245554.4 → XP_011243856.1  transcription factor 20 isoform X4

    UniProtKB/TrEMBL
    Q80U46
    Conserved Domains (1) summary
    cl22851
    Location:1733 → 1916
    PHD_SF; PHD finger superfamily
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q9EPQ8.3 GenPept UniProtKB/Swiss-Prot:Q9EPQ8

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