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Prpf38b pre-mRNA processing factor 38B [ Rattus norvegicus (Norway rat) ]

Gene ID: 499691, updated on 17-Aug-2024

Summary

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Official Symbol
Prpf38bprovided by RGD
Official Full Name
pre-mRNA processing factor 38Bprovided by RGD
Primary source
RGD:1562940
See related
EnsemblRapid:ENSRNOG00000020438 AllianceGenome:RGD:1562940
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 be involved in RNA splicing and mRNA processing. Predicted to be part of precatalytic spliceosome. Orthologous to human PRPF38B (pre-mRNA processing factor 38B). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in Thymus (RPKM 248.5), Spleen (RPKM 183.7) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Prpf38b in Genome Data Viewer
Location:
2q34
Exon count:
9
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 2 NC_086020.1 (199241312..199250342, complement)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 2 NC_051337.1 (196553224..196562271, complement)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 2 NC_005101.4 (211706245..211715271, complement)

Chromosome 2 - NC_086020.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC134485674 Neighboring gene fibronectin type III domain containing 7 Neighboring gene microRNA 6314 Neighboring gene HEN methyltransferase 1 Neighboring gene EEIG family member 2

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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GeneRIFs: Gene References Into Functions

General gene information

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Markers

Homology

Gene Ontology Provided by RGD

Process Evidence Code Pubs
involved_in RNA splicing IEA
Inferred from Electronic Annotation
more info
  
involved_in mRNA processing IEA
Inferred from Electronic Annotation
more info
  
involved_in mRNA splicing, via spliceosome IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
part_of precatalytic spliceosome IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of spliceosomal complex IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
pre-mRNA-splicing factor 38B
Names
PRP38 pre-mRNA processing factor 38 domain containing B

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_001024305.2 → NP_001019476.1  pre-mRNA-splicing factor 38B

    See identical proteins and their annotated locations for NP_001019476.1

    Status: VALIDATED

    Source sequence(s)
    BC079264, BF283777, CB720005, DY314904
    UniProtKB/Swiss-Prot
    Q6AXY7
    UniProtKB/TrEMBL
    A6HV34
    Related
    ENSRNOP00000027738.4, ENSRNOT00000027738.7
    Conserved Domains (2) summary
    pfam03371
    Location:47 → 227
    PRP38; PRP38 family
    pfam08648
    Location:443 → 542
    DUF1777; Protein of unknown function (DUF1777)

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_086020.1 Reference GRCr8

    Range
    199241312..199250342 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006233172.4 → XP_006233234.1  pre-mRNA-splicing factor 38B isoform X1

    See identical proteins and their annotated locations for XP_006233234.1

    Conserved Domains (1) summary
    pfam03371
    Location:18 → 152
    PRP38; PRP38 family

  2. XM_039102942.2 → XP_038958870.1  pre-mRNA-splicing factor 38B isoform X2

    Conserved Domains (1) summary
    pfam03371
    Location:15 → 116
    PRP38; PRP38 family

  3. XM_039102941.2 → XP_038958869.1  pre-mRNA-splicing factor 38B isoform X2

    Conserved Domains (1) summary
    pfam03371
    Location:15 → 116
    PRP38; PRP38 family

  4. XM_063282405.1 → XP_063138475.1  pre-mRNA-splicing factor 38B isoform X3

RNA

  1. XR_005500347.2 RNA Sequence

  2. XR_010063654.1 RNA Sequence

Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q6AXY7.1 GenPept UniProtKB/Swiss-Prot:Q6AXY7

Gene LinkOut

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