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

Gene ID: 84950, updated on 4-Jan-2025

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; AllianceGenome:HGNC:25930
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
Summary
Enables RNA binding activity. Involved in mRNA splicing, via spliceosome. Located in nucleoplasm. Part of U2-type precatalytic spliceosome. [provided by Alliance of Genome Resources, Jan 2025]
Expression
Ubiquitous expression in lymph node (RPKM 12.2), ovary (RPKM 11.7) and 25 other tissues See more
Orthologs
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Genomic context

See PRPF38A in Genome Data Viewer
Location:
1p32.3
Exon count:
10
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (52404602..52420836)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (52286071..52302304)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (52870274..52886508)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene NANOG-H3K27ac hESC enhancers GRCh37_chr1:52815874-52816848 and GRCh37_chr1:52816849-52817822 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:52822843-52823344 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 886 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 887 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1031 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 888 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 889 Neighboring gene coiled-coil and C2 domain containing 1B Neighboring gene phospholipase A2 group XIIA pseudogene 1 Neighboring gene origin recognition complex subunit 1 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr1:52869594-52870793 Neighboring gene uncharacterized LOC124904850 Neighboring gene Sharpr-MPRA regulatory region 15542 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1032 Neighboring gene terminal uridylyl transferase 4 Neighboring gene MPRA-validated peak227 silencer Neighboring gene MPRA-validated peak228 silencer Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:52963547-52964066 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:52964067-52964586 Neighboring gene uncharacterized LOC105378723 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1033 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 890 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 891 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 892 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 893 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:53036969-53037469 Neighboring gene eukaryotic translation elongation factor 1 gamma pseudogene 7

Genomic regions, transcripts, and products

Expression

  • Project title: Tissue-specific circular RNA induction during human fetal development
  • Description: 35 human fetal samples from 6 tissues (3 - 7 replicates per tissue) collected between 10 and 20 weeks gestational time were sequenced using Illumina TruSeq Stranded Total RNA
  • BioProject: PRJNA270632
  • Publication: PMID 26076956
  • Analysis date: Mon Apr 2 22:54:59 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

General gene information

Clone Names

  • MGC3320, FLJ14936

Gene Ontology Provided by GOA

Component Evidence Code Pubs
part_of U2-type precatalytic spliceosome PubMed 
located_in nucleoplasm  
located_in nucleoplasm  
located_in nucleus PubMed 
part_of precatalytic spliceosome  
part_of precatalytic spliceosome 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)

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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_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, Q96JW1, Q9BVZ8
    Related
    ENSP00000257181.8, ENST00000257181.10
    Conserved Domains (1) summary
    pfam03371
    Location:10172
    PRP38; PRP38 family

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000001.11 Reference GRCh38.p14 Primary Assembly

    Range
    52404602..52420836
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060925.1 Alternate T2T-CHM13v2.0

    Range
    52286071..52302304
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

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