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trps1 transcriptional repressor GATA binding 1 [ Xenopus tropicalis (tropical clawed frog) ]

Gene ID: 100493561, updated on 4-Nov-2024

Summary

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Official Symbol
trps1provided by Xenbase
Official Full Name
transcriptional repressor GATA binding 1provided by Xenbase
Primary source
Xenbase:XB-GENE-1013667
See related
Ensembl:ENSXETG00000016286 AllianceGenome:Xenbase:XB-GENE-1013667
Gene type
protein coding
RefSeq status
MODEL
Organism
Xenopus tropicalis
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Amphibia; Batrachia; Anura; Pipoidea; Pipidae; Xenopodinae; Xenopus; Silurana
Summary
Predicted to enable RNA polymerase II transcription regulatory region sequence-specific DNA binding activity. Predicted to be involved in regulation of transcription by RNA polymerase II. Predicted to act upstream of or within regulation of DNA-templated transcription. Predicted to be located in nucleus. Human ortholog(s) of this gene implicated in osteochondrodysplasia; trichorhinophalangeal syndrome type I; and trichorhinophalangeal syndrome type III. Orthologous to human TRPS1 (transcriptional repressor GATA binding 1). [provided by Alliance of Genome Resources, Nov 2024]
Orthologs
human mouse all
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Genomic context

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See trps1 in Genome Data Viewer
Location:
chromosome: 6
Exon count:
10
Annotation release Status Assembly Chr Location
104 current UCB_Xtro_10.0 (GCF_000004195.4) 6 NC_030682.2 (136013065..136194955, complement)
103 previous assembly Xenopus_tropicalis_v9.1 (GCF_000004195.3) 6 NC_030682.1 (120805746..120984948, complement)

Chromosome 6 - NC_030682.2Genomic Context describing neighboring genes Neighboring gene potassium channel, voltage gated modifier subfamily V, member 1 Neighboring gene CUB and Sushi multiple domains 3 Neighboring gene uncharacterized LOC116411551 Neighboring gene eukaryotic translation initiation factor 3 subunit H Neighboring gene UTP23, small subunit processome component

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Bibliography

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Related articles in PubMed

  1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

GeneRIFs: Gene References Into Functions

General gene information

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Homology

Gene Ontology Provided by Xenbase

Function Evidence Code Pubs
enables DNA-binding transcription factor activity IEA
Inferred from Electronic Annotation
more info
  
enables RNA polymerase II transcription regulatory region sequence-specific DNA binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables sequence-specific DNA binding IEA
Inferred from Electronic Annotation
more info
  
enables zinc ion binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
acts_upstream_of_or_within regulation of DNA-templated transcription IEA
Inferred from Electronic Annotation
more info
  
involved_in regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
located_in nucleus IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
zinc finger transcription factor Trps1
Names
trichorhinophalangeal syndrome I

NCBI Reference Sequences (RefSeq)

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RefSeqs of Annotated Genomes: Xenopus tropicalis Annotation Release 104 details...Open this link in a new tab

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

Reference UCB_Xtro_10.0 Primary Assembly

Genomic

  1. NC_030682.2 Reference UCB_Xtro_10.0 Primary Assembly

    Range
    136013065..136194955 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_031904006.1 → XP_031759866.1  zinc finger transcription factor Trps1 isoform X2

    UniProtKB/TrEMBL
    A0A6I8SA64, A0A6I8SHV3
    Conserved Domains (1) summary
    cd00202
    Location:882 → 938
    ZnF_GATA; Zinc finger DNA binding domain; binds specifically to DNA consensus sequence [AT]GATA[AG] promoter elements; a subset of family members may also bind protein; zinc-finger consensus topology is C-X(2)-C-X(17)-C-X(2)-C

  2. XM_002940009.5 → XP_002940055.1  zinc finger transcription factor Trps1 isoform X2

    See identical proteins and their annotated locations for XP_002940055.1

    UniProtKB/TrEMBL
    A0A6I8SA64, A0A6I8SHV3
    Related
    ENSXETP00000095209.1, ENSXETT00000074372.2
    Conserved Domains (1) summary
    cd00202
    Location:882 → 938
    ZnF_GATA; Zinc finger DNA binding domain; binds specifically to DNA consensus sequence [AT]GATA[AG] promoter elements; a subset of family members may also bind protein; zinc-finger consensus topology is C-X(2)-C-X(17)-C-X(2)-C

  3. XM_031904005.1 → XP_031759865.1  zinc finger transcription factor Trps1 isoform X2

    UniProtKB/TrEMBL
    A0A6I8SA64, A0A6I8SHV3
    Conserved Domains (1) summary
    cd00202
    Location:882 → 938
    ZnF_GATA; Zinc finger DNA binding domain; binds specifically to DNA consensus sequence [AT]GATA[AG] promoter elements; a subset of family members may also bind protein; zinc-finger consensus topology is C-X(2)-C-X(17)-C-X(2)-C

  4. XM_031904007.1 → XP_031759867.1  zinc finger transcription factor Trps1 isoform X2

    UniProtKB/TrEMBL
    A0A6I8SA64, A0A6I8SHV3
    Conserved Domains (1) summary
    cd00202
    Location:882 → 938
    ZnF_GATA; Zinc finger DNA binding domain; binds specifically to DNA consensus sequence [AT]GATA[AG] promoter elements; a subset of family members may also bind protein; zinc-finger consensus topology is C-X(2)-C-X(17)-C-X(2)-C

  5. XM_004915061.4 → XP_004915118.1  zinc finger transcription factor Trps1 isoform X1

    UniProtKB/TrEMBL
    A0A803J7C1, A0A8J0R241
    Conserved Domains (1) summary
    cd00202
    Location:884 → 940
    ZnF_GATA; Zinc finger DNA binding domain; binds specifically to DNA consensus sequence [AT]GATA[AG] promoter elements; a subset of family members may also bind protein; zinc-finger consensus topology is C-X(2)-C-X(17)-C-X(2)-C

  6. XM_018095170.2 → XP_017950659.1  zinc finger transcription factor Trps1 isoform X3

    UniProtKB/TrEMBL
    A0A6I8SHV3, F6QIJ2
    Related
    ENSXETP00000035543.5, ENSXETT00000035543.5
    Conserved Domains (1) summary
    cd00202
    Location:631 → 687
    ZnF_GATA; Zinc finger DNA binding domain; binds specifically to DNA consensus sequence [AT]GATA[AG] promoter elements; a subset of family members may also bind protein; zinc-finger consensus topology is C-X(2)-C-X(17)-C-X(2)-C
Nucleotide Protein Strain
Heading Accession and Version

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