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prpf40a.L pre-mRNA processing factor 40 homolog A L homeolog [ Xenopus laevis (African clawed frog) ]

Gene ID: 100158376, updated on 18-Sep-2024

Summary

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Official Symbol
prpf40a.L
Official Full Name
pre-mRNA processing factor 40 homolog A L homeolog
Primary source
Xenbase:XB-GENE-988697
Locus tag
XELAEV_18044578mg
See related
EnsemblRapid:ENSXLAG00005031476
Gene type
protein coding
RefSeq status
MODEL
Organism
Xenopus laevis
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Amphibia; Batrachia; Anura; Pipoidea; Pipidae; Xenopodinae; Xenopus; Xenopus
Also known as
hypa; fbp11; flaf1; fnbp3; hip10; prp40; fbp-11; prpf40a
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Genomic context

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See prpf40a.L in Genome Data Viewer
Location:
chromosome: 9_10L
Exon count:
29
Annotation release Status Assembly Chr Location
101 current Xenopus_laevis_v10.1 (GCF_017654675.1) 9_10L NC_054387.1 (68883413..68905519, complement)
100 previous assembly Xenopus_laevis_v2 (GCF_001663975.1) 9_10L NC_030740.1 (58366069..58388573, complement)

Chromosome 9_10L - NC_054387.1Genomic Context describing neighboring genes Neighboring gene signal transducing adaptor molecule 2 L homeolog Neighboring gene formin like 2 L homeolog Neighboring gene ADP ribosylation factor like GTPase 6 interacting protein 6 L homeolog Neighboring gene reprimo, TP53 dependent G2 arrest mediator homolog L 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 RNA binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
acts_upstream_of_or_within mRNA cis splicing, via spliceosome IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within mRNA splicing, via spliceosome IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
part_of U1 snRNP IEA
Inferred from Electronic Annotation
more info
  
part_of U2-type prespliceosome IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
pre-mRNA processing factor 40 homolog A L homeolog; pre-mRNA-processing factor 40 homolog A
Names
PRP40 pre-mRNA processing factor 40 homolog A

NCBI Reference Sequences (RefSeq)

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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_054387.1 Reference Xenopus_laevis_v10.1 Primary Assembly

    Range
    68883413..68905519 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_018233942.2 → XP_018089431.1  pre-mRNA-processing factor 40 homolog A isoform X3

    UniProtKB/TrEMBL
    A0A1L8EVW7, A0A974H3U7

  2. XM_018233941.2 → XP_018089430.1  pre-mRNA-processing factor 40 homolog A isoform X2

    UniProtKB/TrEMBL
    A0A1L8EVX4, A0A974BZN9
    Related
    ENSXLAP00005095073.1, ENSXLAT00005096804.1

  3. XM_041577113.1 → XP_041433047.1  pre-mRNA-processing factor 40 homolog A isoform X5

    UniProtKB/TrEMBL
    A0A8J1LU25
    Related
    ENSXLAP00005094936.1, ENSXLAT00005096649.1
    Conserved Domains (2) summary
    COG5104
    Location:135 → 748
    PRP40; Splicing factor [RNA processing and modification]
    TIGR01622
    Location:838 → 920
    SF-CC1; splicing factor, CC1-like family

  4. XM_041577112.1 → XP_041433046.1  pre-mRNA-processing factor 40 homolog A isoform X4

    UniProtKB/TrEMBL
    A0A8J0TSC9
    Conserved Domains (2) summary
    COG5104
    Location:100 → 713
    PRP40; Splicing factor [RNA processing and modification]
    TIGR01622
    Location:803 → 885
    SF-CC1; splicing factor, CC1-like family

  5. XM_018233944.2 → XP_018089433.1  pre-mRNA-processing factor 40 homolog A isoform X4

    UniProtKB/TrEMBL
    A0A8J0TSC9
    Conserved Domains (2) summary
    COG5104
    Location:100 → 713
    PRP40; Splicing factor [RNA processing and modification]
    TIGR01622
    Location:803 → 885
    SF-CC1; splicing factor, CC1-like family

  6. XM_018233940.2 → XP_018089429.1  pre-mRNA-processing factor 40 homolog A isoform X1

    UniProtKB/TrEMBL
    A0A8J0TTE0

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_001127820.1: Suppressed sequence

    Description
    NM_001127820.1: This RefSeq was removed because it is a nonsense-mediated mRNA decay (NMD) candidate.
Nucleotide Protein Strain
Heading Accession and Version

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