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    U2AF1L4 U2 small nuclear RNA auxiliary factor 1 like 4 [ Homo sapiens (human) ]

    Gene ID: 199746, updated on 5-Mar-2024

    Summary

    Official Symbol
    U2AF1L4provided by HGNC
    Official Full Name
    U2 small nuclear RNA auxiliary factor 1 like 4provided by HGNC
    Primary source
    HGNC:HGNC:23020
    See related
    Ensembl:ENSG00000161265 MIM:601080; AllianceGenome:HGNC:23020
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    U2af26; U2AF1L3; U2AF1RS3; U2AF1-RS3; U2AF1L3V1
    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 nucleoplasm. Predicted to be part of U2AF complex and spliceosomal complex. [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Ubiquitous expression in spleen (RPKM 9.3), thyroid (RPKM 9.1) and 25 other tissues See more
    Orthologs
    NEW
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    Genomic context

    See U2AF1L4 in Genome Data Viewer
    Location:
    19q13.12
    Exon count:
    10
    Annotation release Status Assembly Chr Location
    RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 19 NC_000019.10 (35742464..35745418, complement)
    RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 19 NC_060943.1 (38287776..38290728, complement)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 19 NC_000019.9 (36233365..36236319, complement)

    Chromosome 19 - NC_000019.10Genomic Context describing neighboring genes Neighboring gene zinc finger and BTB domain containing 32 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14493 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14494 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10532 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr19:36207458-36208017 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10533 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10534 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10535 Neighboring gene H3K27ac hESC enhancer GRCh37_chr19:36209137-36209694 Neighboring gene lysine methyltransferase 2B Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:36230671-36231301 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10538 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14496 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14497 Neighboring gene IGF like family receptor 1 Neighboring gene ReSE screen-validated silencer GRCh37_chr19:36234871-36235031 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:36238731-36239245 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:36239246-36239760 Neighboring gene presenilin enhancer, gamma-secretase subunit Neighboring gene lin-37 DREAM MuvB core complex component

    Genomic regions, transcripts, and products

    Expression

    • Project title: HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Apr 4 07:08:55 2018

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Clone Names

    • FLJ18593, FLJ35525, MGC33901

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    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
     
    Component Evidence Code Pubs
    part_of U2AF complex IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
     
    located_in nuclear speck IEA
    Inferred from Electronic Annotation
    more info
     
    located_in nucleoplasm TAS
    Traceable Author Statement
    more info
     
    part_of spliceosomal complex IBA
    Inferred from Biological aspect of Ancestor
    more info
     

    General protein information

    Preferred Names
    splicing factor U2AF 26 kDa subunit
    Names
    U2 auxiliary factor 26
    U2 small nuclear RNA auxiliary factor 1-like 3
    U2 small nuclear RNA auxiliary factor 1-like protein 3
    U2 small nuclear RNA auxiliary factor 1-like protein 4
    U2(RNU2) small nuclear RNA auxiliary factor 1-like 3
    U2(RNU2) small nuclear RNA auxiliary factor 1-like protein 3
    U2AF1-like 4
    U2AF1-like protein 3

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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_001040425.3NP_001035515.1  splicing factor U2AF 26 kDa subunit isoform 1

      See identical proteins and their annotated locations for NP_001035515.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) has an alternate splice site in the coding region, which results in reading frameshift, compared to variant 2. The resulting isoform (1) is shorter and has a distinct C-terminus, compared to isoform 2.
      Source sequence(s)
      AI767079, AY569437, DC415103
      Consensus CDS
      CCDS42551.1
      UniProtKB/Swiss-Prot
      A6NKI8, Q56UU3, Q8WU68
      Related
      ENSP00000368258.2, ENST00000378975.8
      Conserved Domains (2) summary
      pfam00642
      Location:110136
      zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)
      cl17169
      Location:41107
      RRM_SF; RNA recognition motif (RRM) superfamily
    2. NM_001369824.2NP_001356753.1  splicing factor U2AF 26 kDa subunit isoform 3

      Status: VALIDATED

      Source sequence(s)
      AD000671
      Conserved Domains (2) summary
      pfam00642
      Location:1339
      zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)
      cl17169
      Location:41102
      RRM_SF; RNA recognition motif (RRM) superfamily
    3. NM_144987.4NP_659424.2  splicing factor U2AF 26 kDa subunit isoform 2

      See identical proteins and their annotated locations for NP_659424.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) encodes the longer isoform (2).
      Source sequence(s)
      AI767079, AY569437, BC010865, BC021186, DC415103
      Consensus CDS
      CCDS12473.1
      UniProtKB/Swiss-Prot
      Q8WU68
      Related
      ENSP00000292879.4, ENST00000292879.9
      Conserved Domains (2) summary
      pfam00642
      Location:1339
      zf-CCCH; Zinc finger C-x8-C-x5-C-x3-H type (and similar)
      cl17169
      Location:41102
      RRM_SF; RNA recognition motif (RRM) superfamily

    RNA

    1. NR_110173.2 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (5) has an additional exon, compared to variant 2. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 2, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AI767079, BC010865, BM696851
    2. NR_163169.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AD000671
      Related
      ENST00000592913.5
    3. NR_163170.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AD000671
      Related
      ENST00000587987.5
    4. NR_163171.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AD000671
    5. NR_163172.2 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AD000671
    6. NR_163173.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AD000671

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000019.10 Reference GRCh38.p14 Primary Assembly

      Range
      35742464..35745418 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060943.1 Alternate T2T-CHM13v2.0

      Range
      38287776..38290728 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NR_110171.1: Suppressed sequence

      Description
      NR_110171.1: This RefSeq was removed because currently there is insufficient support for the transcript.
    2. NR_110172.1: Suppressed sequence

      Description
      NR_110172.1: This RefSeq was removed because currently there is insufficient support for the transcript.