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U2af1l4 U2 small nuclear RNA auxiliary factor 1-like 4 [ Rattus norvegicus (Norway rat) ]

Gene ID: 361542, updated on 17-Aug-2024

Summary

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Official Symbol
U2af1l4provided by RGD
Official Full Name
U2 small nuclear RNA auxiliary factor 1-like 4provided by RGD
Primary source
RGD:1305600
See related
EnsemblRapid:ENSRNOG00000024497 AllianceGenome:RGD:1305600
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary
Predicted to enable pre-mRNA 3'-splice site binding activity. Predicted to be involved in mRNA splicing, via spliceosome. Predicted to be located in cytoplasm and nuclear speck. Predicted to be part of U2AF complex and spliceosomal complex. Orthologous to human U2AF1L4 (U2 small nuclear RNA auxiliary factor 1 like 4). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in Heart (RPKM 126.3), Brain (RPKM 111.4) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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Location:
1q21
Exon count:
8
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 1 NC_086019.1 (94943684..94945906)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 1 NC_051336.1 (85816268..85818462)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 1 NC_005100.4 (89017414..89019651)

Chromosome 1 - NC_086019.1Genomic Context describing neighboring genes Neighboring gene heat shock protein family B (small) member 6 Neighboring gene lin-37 DREAM MuvB core complex component Neighboring gene presenilin enhancer gamma secretase subunit Neighboring gene IGF-like family receptor 1 Neighboring gene lysine methyltransferase 2B Neighboring gene microRNA 3569 Neighboring gene zinc finger and BTB domain containing 32

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
  • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
  • BioProject: PRJNA238328
  • Publication: PMID 24510058
  • Analysis date: Mon Jun 6 17:44:12 2016

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

Pathways from PubChem

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General gene information

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Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables RNA binding IEA
Inferred from Electronic Annotation
more info
  
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
enables pre-mRNA 3'-splice site binding IBA
Inferred from Biological aspect of Ancestor
more info
  
Process Evidence Code Pubs
involved_in mRNA splicing, via spliceosome IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in mRNA splicing, via spliceosome IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
part_of U2AF complex IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of U2AF complex IEA
Inferred from Electronic Annotation
more info
  
located_in cytoplasm IEA
Inferred from Electronic Annotation
more info
  
located_in nuclear speck IEA
Inferred from Electronic Annotation
more info
  
part_of spliceosomal complex IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
splicing factor U2AF 26 kDa subunit
Names
Cb2-807
U2 auxiliary factor 26
U2 small nuclear RNA auxiliary factor 1-like protein 4
U2AF1-like 4
liver regeneration-related protein LRRG157/LRRG158

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_001008775.2 → NP_001008775.1  splicing factor U2AF 26 kDa subunit

    See identical proteins and their annotated locations for NP_001008775.1

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000001
    UniProtKB/Swiss-Prot
    Q7TP17, Q7TP18
    UniProtKB/TrEMBL
    A0A8I5ZTD8, A6J9Z2
    Related
    ENSRNOP00000082091.1, ENSRNOT00000118586.2
    Conserved Domains (2) summary
    pfam00642
    Location:149 → 175
    zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)
    cd12538
    Location:43 → 146
    RRM_U2AF35; RNA recognition motif (RRM) found in U2 small nuclear ribonucleoprotein auxiliary factor U2AF 35 kDa subunit (U2AF35)

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

  1. NC_086019.1 Reference GRCr8

    Range
    94943684..94945906
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_039081940.2 → XP_038937868.1  splicing factor U2AF 26 kDa subunit isoform X4

    Conserved Domains (2) summary
    pfam00642
    Location:13 → 39
    zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)
    cl17169
    Location:43 → 113
    RRM_SF; RNA recognition motif (RRM) superfamily

  2. XM_039081930.2 → XP_038937858.1  splicing factor U2AF 26 kDa subunit isoform X2

    UniProtKB/TrEMBL
    A0A8I6A441, A6J9Z3
    Related
    ENSRNOP00000086667.1, ENSRNOT00000098092.2
    Conserved Domains (2) summary
    pfam00642
    Location:13 → 39
    zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)
    cd12538
    Location:43 → 146
    RRM_U2AF35; RNA recognition motif (RRM) found in U2 small nuclear ribonucleoprotein auxiliary factor U2AF 35 kDa subunit (U2AF35)

  3. XM_039081934.2 → XP_038937862.1  splicing factor U2AF 26 kDa subunit isoform X3

    UniProtKB/TrEMBL
    A0A8I6A4P9
    Related
    ENSRNOP00000095413.2, ENSRNOT00000116214.2
    Conserved Domains (2) summary
    pfam00642
    Location:116 → 142
    zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)
    cl17169
    Location:43 → 113
    RRM_SF; RNA recognition motif (RRM) superfamily

  4. XM_006228777.4 → XP_006228839.1  splicing factor U2AF 26 kDa subunit isoform X1

    Conserved Domains (2) summary
    pfam00642
    Location:127 → 153
    zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)
    cd12538
    Location:21 → 124
    RRM_U2AF35; RNA recognition motif (RRM) found in U2 small nuclear ribonucleoprotein auxiliary factor U2AF 35 kDa subunit (U2AF35)
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q7TP17.1 GenPept UniProtKB/Swiss-Prot:Q7TP17

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