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tfe3.S transcription factor binding to IGHM enhancer 3 S homeolog [ Xenopus laevis (African clawed frog) ]

Gene ID: 495043, updated on 4-Nov-2024

Summary

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Official Symbol
tfe3.S
Official Full Name
transcription factor binding to IGHM enhancer 3 S homeolog
Primary source
Xenbase:XB-GENE-5918226
Locus tag
XELAEV_18040990mg
See related
EnsemblRapid:ENSXLAG00005020393 AllianceGenome:Xenbase:XB-GENE-5918226
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Xenopus laevis
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Amphibia; Batrachia; Anura; Pipoidea; Pipidae; Xenopodinae; Xenopus; Xenopus
Also known as
tfe3
Summary
Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific; RNA polymerase II cis-regulatory region sequence-specific DNA binding activity; and protein dimerization activity. Predicted to act upstream of or within regulation of transcription by RNA polymerase II. Predicted to be located in nucleus. Human ortholog(s) of this gene implicated in renal cell carcinoma. Orthologous to human TFE3 (transcription factor binding to IGHM enhancer 3). [provided by Alliance of Genome Resources, Nov 2024]
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Genomic context

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See tfe3.S in Genome Data Viewer
Location:
chromosome: 8S
Exon count:
11
Annotation release Status Assembly Chr Location
101 current Xenopus_laevis_v10.1 (GCF_017654675.1) 8S NC_054386.1 (368369..374357, complement)
100 previous assembly Xenopus_laevis_v2 (GCF_001663975.1) 8S NC_030739.1 (341203..347391, complement)

Chromosome 8S - NC_054386.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC108699700 Neighboring gene potassium channel, voltage gated Shal related subfamily D, member 1 S homeolog Neighboring gene GRIP1 associated protein 1 S homeolog Neighboring gene coiled-coil domain-containing protein 120 Neighboring gene ubiquitin-like modifier activating enzyme 1 S homeolog

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. Genetic and genomic tools for Xenopus research: The NIH Xenopus initiative. Klein SL, et al. Dev Dyn, 2002 Dec. PMID 12454917
  2. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, 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 IEA
Inferred from Electronic Annotation
more info
  
enables DNA-binding transcription factor activity, RNA polymerase II-specific IEA
Inferred from Electronic Annotation
more info
  
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IEA
Inferred from Electronic Annotation
more info
  
enables protein dimerization activity 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
  
acts_upstream_of_or_within regulation of transcription by RNA polymerase II IEA
Inferred from Electronic Annotation
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
transcription factor binding to IGHM enhancer 3 S homeolog

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_001094746.1 → NP_001088215.1  transcription factor binding to IGHM enhancer 3 S homeolog

    See identical proteins and their annotated locations for NP_001088215.1

    Status: PROVISIONAL

    Source sequence(s)
    BC084138
    UniProtKB/TrEMBL
    A0A974C1K0, Q5XHC0
    Related
    ENSXLAP00005059740.1, ENSXLAT00005061189.1
    Conserved Domains (3) summary
    cd00083
    Location:223 → 283
    HLH; Helix-loop-helix domain, found in specific DNA- binding proteins that act as transcription factors; 60-100 amino acids long. A DNA-binding basic region is followed by two alpha-helices separated by a variable loop region; HLH forms homo- and heterodimers, ...
    pfam11851
    Location:311 → 428
    DUF3371; Domain of unknown function (DUF3371)
    pfam15951
    Location:4 → 148
    MITF_TFEB_C_3_N; MITF/TFEB/TFEC/TFE3 N-terminus

RefSeqs of Annotated Genomes: Xenopus laevis Annotation Release 101 details...Open this link in a new tab

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

Reference Xenopus_laevis_v10.1 Primary Assembly

Genomic

  1. NC_054386.1 Reference Xenopus_laevis_v10.1 Primary Assembly

    Range
    368369..374357 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_018232061.2 → XP_018087550.1  transcription factor binding to IGHM enhancer 3 S homeolog isoform X1

    UniProtKB/TrEMBL
    A0A974C1K0, Q5XHC0
    Related
    ENSXLAP00005059730.1, ENSXLAT00005061179.1
Nucleotide Protein Strain
Heading Accession and Version

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