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PRPF38A pre-mRNA processing factor 38A [ Homo sapiens (human) ]

Gene ID: 84950, updated on 4-Oct-2020

Summary

Official Symbol
PRPF38Aprovided by HGNC
Official Full Name
pre-mRNA processing factor 38Aprovided by HGNC
Primary source
HGNC:HGNC:25930
See related
Ensembl:ENSG00000134748 MIM:617031
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
Prp38; PRP38A
Expression
Ubiquitous expression in lymph node (RPKM 12.2), ovary (RPKM 11.7) and 25 other tissues See more
Orthologs

Genomic context

See PRPF38A in Genome Data Viewer
Location:
1p32.3
Exon count:
10
Annotation release Status Assembly Chr Location
109.20200815 current GRCh38.p13 (GCF_000001405.39) 1 NC_000001.11 (52404564..52420836)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (52870219..52883992)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene phospholipase A2 group XIIA pseudogene 1 Neighboring gene origin recognition complex subunit 1 Neighboring gene terminal uridylyl transferase 4 Neighboring gene uncharacterized LOC105378723 Neighboring gene eukaryotic translation elongation factor 1 gamma pseudogene 7

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

HIV-1 interactions

Replication interactions

Interaction Pubs
Knockdown of PRP38 pre-mRNA processing factor 38 domain containing A (PRPF38A) by siRNA inhibits the early stages of HIV-1 replication in 293T cells infected with VSV-G pseudotyped HIV-1 PubMed

Go to the HIV-1, Human Interaction Database

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • MGC3320, FLJ14936

Gene Ontology Provided by GOA

Function Evidence Code Pubs
RNA binding HDA PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
mRNA splicing, via spliceosome IDA
Inferred from Direct Assay
more info
PubMed 
mRNA splicing, via spliceosome IMP
Inferred from Mutant Phenotype
more info
PubMed 
mRNA splicing, via spliceosome TAS
Traceable Author Statement
more info
 
Component Evidence Code Pubs
U2-type precatalytic spliceosome IDA
Inferred from Direct Assay
more info
PubMed 
nuclear membrane IDA
Inferred from Direct Assay
more info
 
nucleoplasm IDA
Inferred from Direct Assay
more info
 
nucleoplasm TAS
Traceable Author Statement
more info
 
nucleus IDA
Inferred from Direct Assay
more info
PubMed 
precatalytic spliceosome IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
precatalytic spliceosome IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

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

NCBI Reference Sequences (RefSeq)

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_032864.4NP_116253.2  pre-mRNA-splicing factor 38A

    See identical proteins and their annotated locations for NP_116253.2

    Status: VALIDATED

    Source sequence(s)
    AK092038, AL138849, BE465896, BF223635, BU508261
    Consensus CDS
    CCDS567.1
    UniProtKB/Swiss-Prot
    Q8NAV1
    Related
    ENSP00000257181.8, ENST00000257181.10
    Conserved Domains (1) summary
    pfam03371
    Location:10172
    PRP38; PRP38 family

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20200815

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000001.11 Reference GRCh38.p13 Primary Assembly

    Range
    52404564..52420836
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011542315.3XP_011540617.1  pre-mRNA-splicing factor 38A isoform X1

    See identical proteins and their annotated locations for XP_011540617.1

    Conserved Domains (1) summary
    pfam03371
    Location:10172
    PRP38; PRP38 family

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_032284.2: Suppressed sequence

    Description
    NM_032284.2: This RefSeq was permanently suppressed because it contains the wrong CDS.
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