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ilf3.S interleukin enhancer binding factor 3 S homeolog [ Xenopus laevis (African clawed frog) ]

Gene ID: 399197, updated on 4-Nov-2024

Summary

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Official Symbol
ilf3.S
Official Full Name
interleukin enhancer binding factor 3 S homeolog
Primary source
Xenbase:XB-GENE-494371
Locus tag
XELAEV_18000730mg
See related
EnsemblRapid:ENSXLAG00005010119 AllianceGenome:Xenbase:XB-GENE-494371
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
4F.1; NF90; ilf3; ubp3; ubp4; xilf3; ilf3-A; ilf3-b; cbtf122
Summary
Enables double-stranded RNA binding activity and transcription cis-regulatory region binding activity. Acts upstream of or within regulation of transcription by RNA polymerase II. Located in cytoplasm and nucleus. Orthologous to human ILF3 (interleukin enhancer binding factor 3). [provided by Alliance of Genome Resources, Nov 2024]
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Genomic context

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See ilf3.S in Genome Data Viewer
Location:
chromosome: 3S
Exon count:
21
Annotation release Status Assembly Chr Location
101 current Xenopus_laevis_v10.1 (GCF_017654675.1) 3S NC_054376.1 (123587777..123618877)
100 previous assembly Xenopus_laevis_v2 (GCF_001663975.1) Unplaced Scaffold NW_016694811.1 (127401..158775)

Chromosome 3S - NC_054376.1Genomic Context describing neighboring genes Neighboring gene adaptor related protein complex 1 subunit mu 2 S homeolog Neighboring gene solute carrier family 44 (choline transporter), member 2 S homeolog Neighboring gene beta-1,3 galactosyltransferase 2 like gene 6 S homeolog Neighboring gene beta-1,3 galactosyltransferase 2 like gene 7 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. Intact RNA-binding domains are necessary for structure-specific DNA binding and transcription control by CBTF122 during Xenopus development. Scarlett GP, et al. J Biol Chem, 2004 Dec 10. PMID 15452137
  2. RNA-dependent cytoplasmic anchoring of a transcription factor subunit during Xenopus development. Brzostowski J, et al. EMBO J, 2000 Jul 17. PMID 10899122, Free PMC Article
  3. The maternal CCAAT box transcription factor which controls GATA-2 expression is novel and developmentally regulated and contains a double-stranded-RNA-binding subunit. Orford RL, et al. Mol Cell Biol, 1998 Sep. PMID 9710639, Free PMC Article
  4. A-form DNA structure is a determinant of transcript levels from the Xenopus gata2 promoter in embryos. Llewellyn KJ, et al. Biochim Biophys Acta, 2009 Nov-Dec. PMID 19665599
  5. Methylation of Xilf3 by Xprmt1b alters its DNA, but not RNA, binding activity. Cazanove O, et al. Biochemistry, 2008 Aug 12. PMID 18636753

See all (10) citations in PubMed

GeneRIFs: Gene References Into Functions

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Homology

Clone Names

  • MGC130710

Gene Ontology Provided by Xenbase

Function Evidence Code Pubs
enables DNA binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables DNA binding IEA
Inferred from Electronic Annotation
more info
  
enables RNA binding IEA
Inferred from Electronic Annotation
more info
  
enables double-stranded RNA binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables double-stranded RNA binding IEA
Inferred from Electronic Annotation
more info
  
enables mRNA 3'-UTR AU-rich region binding ISS
Inferred from Sequence or Structural Similarity
more info
  
enables sequence-specific DNA binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables single-stranded RNA binding IEA
Inferred from Electronic Annotation
more info
  
enables transcription cis-regulatory region binding IDA
Inferred from Direct Assay
more info
 PubMed 
Process Evidence Code Pubs
acts_upstream_of_or_within defense response to virus IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within regulation of DNA-templated transcription IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within regulation of transcription by RNA polymerase II IDA
Inferred from Direct Assay
more info
 PubMed 
acts_upstream_of_or_within spliceosome-depend formation of circular RNA ISS
Inferred from Sequence or Structural Similarity
more info
  
Component Evidence Code Pubs
located_in cytoplasm IDA
Inferred from Direct Assay
more info
 PubMed 
located_in cytoplasm IEA
Inferred from Electronic Annotation
more info
  
located_in nucleus IDA
Inferred from Direct Assay
more info
 PubMed 
located_in nucleus IEA
Inferred from Electronic Annotation
more info
  
part_of precatalytic spliceosome IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
interleukin enhancer-binding factor 3-A
Names
CCAAT box transcription factor p122 subunit
interleukin enhancer binding factor 3, 90kDa

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_001090461.1 → NP_001083930.1  interleukin enhancer-binding factor 3-A

    See identical proteins and their annotated locations for NP_001083930.1

    Status: PROVISIONAL

    Source sequence(s)
    BC110711
    UniProtKB/TrEMBL
    Q2TAV5, Q801P6
    Related
    ENSXLAP00005029860.1, ENSXLAT00005030610.1
    Conserved Domains (2) summary
    smart00572
    Location:88 → 342
    DZF; domain in DSRM or ZnF_C2H2 domain containing proteins
    smart00358
    Location:523 → 586
    DSRM; Double-stranded RNA binding motif

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_054376.1 Reference Xenopus_laevis_v10.1 Primary Assembly

    Range
    123587777..123618877
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_018239497.2 → XP_018094986.1  interleukin enhancer-binding factor 3-A isoform X1

    UniProtKB/TrEMBL
    Q2TAV5, Q801P6

  2. XM_018239499.2 → XP_018094988.1  interleukin enhancer-binding factor 3-A isoform X2

    UniProtKB/Swiss-Prot
    Q91550, Q9DEU4
    UniProtKB/TrEMBL
    A0A8J0U1P0
    Related
    ENSXLAP00005029885.1, ENSXLAT00005030635.1

  3. XM_018239496.2 → XP_018094985.1  interleukin enhancer-binding factor 3-A isoform X1

    UniProtKB/TrEMBL
    Q2TAV5, Q801P6

  4. XM_018239502.2 → XP_018094991.1  interleukin enhancer-binding factor 3-A isoform X3

    UniProtKB/Swiss-Prot
    Q91550
    Related
    ENSXLAP00005029819.1, ENSXLAT00005030569.1
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q91550.2 GenPept UniProtKB/Swiss-Prot:Q91550

Gene LinkOut

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