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

Gene ID: 21411, updated on 5-Jan-2023

Summary

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
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Genomic context

See Tcf20 in Genome Data Viewer
Location:
15; 15 E1
Exon count:
11
Annotation release Status Assembly Chr Location
109 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 transforming growth factor beta regulated gene 3 Neighboring gene predicted gene, 20324 Neighboring gene microRNA 3080 Neighboring gene expressed sequence AW121686 Neighboring gene Nfat activating molecule with ITAM motif 1 Neighboring gene predicted gene, 32620 Neighboring gene predicted gene, 41366

Genomic regions, transcripts, and products

Expression

  • 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

Variation

Alleles

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

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

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 
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
PubMed 
located_in nucleus IDA
Inferred from Direct Assay
more info
PubMed 
located_in nucleus ISO
Inferred from Sequence Orthology
more info
 

General protein information

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_001114140.1NP_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
    Q60792, Q9EPQ8
    UniProtKB/TrEMBL
    Q66JM6, Q80U46
    Related
    ENSMUSP00000105136.3, ENSMUST00000109510.10
    Conserved Domains (1) summary
    cd15699
    Location:17331959
    ePHD_TCF20; Extended PHD finger (ePHD) found in transcription factor 20 (TCF-20)
  2. NM_001402838.1NP_001389767.1  transcription factor 20 isoform a

    Status: VALIDATED

    Source sequence(s)
    AC087902, AC129563
    UniProtKB/Swiss-Prot
    Q60792
    Conserved Domains (1) summary
    cd15699
    Location:17331959
    ePHD_TCF20; Extended PHD finger (ePHD) found in transcription factor 20 (TCF-20)
  3. NM_013836.3NP_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
    Q66JM6
    Related
    ENSMUSP00000048486.6, ENSMUST00000048966.7
    Conserved Domains (1) summary
    cd15699
    Location:17331959
    ePHD_TCF20; Extended PHD finger (ePHD) found in transcription factor 20 (TCF-20)

RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...Open this link in a new tab

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_006520732.3XP_006520795.1  transcription factor 20 isoform X1

    See identical proteins and their annotated locations for XP_006520795.1

    UniProtKB/Swiss-Prot
    Q60792, Q9EPQ8
    Conserved Domains (1) summary
    cd15699
    Location:17331959
    ePHD_TCF20; Extended PHD finger (ePHD) found in transcription factor 20 (TCF-20)
  2. XM_006520733.2XP_006520796.1  transcription factor 20 isoform X1

    See identical proteins and their annotated locations for XP_006520796.1

    UniProtKB/Swiss-Prot
    Q60792, Q9EPQ8
    Conserved Domains (1) summary
    cd15699
    Location:17331959
    ePHD_TCF20; Extended PHD finger (ePHD) found in transcription factor 20 (TCF-20)
  3. XM_011245553.4XP_011243855.1  transcription factor 20 isoform X3

    See identical proteins and their annotated locations for XP_011243855.1

    UniProtKB/Swiss-Prot
    Q9EPQ8
    Conserved Domains (1) summary
    cd15699
    Location:17331959
    ePHD_TCF20; Extended PHD finger (ePHD) found in transcription factor 20 (TCF-20)
  4. XM_011245552.4XP_011243854.1  transcription factor 20 isoform X2

    Conserved Domains (1) summary
    cd15699
    Location:17331959
    ePHD_TCF20; Extended PHD finger (ePHD) found in transcription factor 20 (TCF-20)
  5. XM_011245551.4XP_011243853.1  transcription factor 20 isoform X1

    UniProtKB/Swiss-Prot
    Q9EPQ8
    Conserved Domains (1) summary
    cd15699
    Location:17331959
    ePHD_TCF20; Extended PHD finger (ePHD) found in transcription factor 20 (TCF-20)
  6. XM_011245554.4XP_011243856.1  transcription factor 20 isoform X4

    Conserved Domains (1) summary
    cl22851
    Location:17331916
    PHD_SF; PHD finger superfamily