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Aliases for PRPF38A Gene

Aliases for PRPF38A Gene

  • Pre-MRNA Processing Factor 38A 2 3 5
  • PRP38 Pre-MRNA Processing Factor 38 (Yeast) Domain Containing A 2
  • PRP38 Pre-MRNA Processing Factor 38 Domain Containing A 3
  • Pre-MRNA-Splicing Factor 38A 3
  • PRP38A 3
  • Prp38 3

External Ids for PRPF38A Gene

Previous GeneCards Identifiers for PRPF38A Gene

  • GC01P052583
  • GC01P052642
  • GC01P052870
  • GC01P050986

Summaries for PRPF38A Gene

GeneCards Summary for PRPF38A Gene

PRPF38A (Pre-MRNA Processing Factor 38A) is a Protein Coding gene. Among its related pathways are mRNA Splicing - Major Pathway and Gene Expression. GO annotations related to this gene include poly(A) RNA binding.

UniProtKB/Swiss-Prot for PRPF38A Gene

  • May be required for pre-mRNA splicing.

No data available for Entrez Gene Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for PRPF38A Gene

Genomics for PRPF38A Gene

Regulatory Elements for PRPF38A Gene

Enhancers for PRPF38A Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH01F052550 1.4 FANTOM5 ENCODE 9.8 +148.4 148352 5.6 HDGF CREB3L1 ARID4B SIN3A FEZF1 DMAP1 ZNF2 YY1 SLC30A9 ZNF766 ENSG00000228838 CC2D1B GPX7 LOC100652967 TXNDC12-AS1 LOC105378729 GAPDHP51 SLC25A6P3 ZCCHC11 MAGOH
GH01F052402 1.1 ENCODE 11.3 -0.3 -266 3.2 HDGF PKNOX1 ARNT CREB3L1 WRNIP1 ARID4B SIN3A DMAP1 ZNF2 YY1 MAGOH ENSG00000266993 PRPF38A TXNDC12 ZCCHC11 KTI12 ORC1 PLA2G12AP1
GH01F052574 1 Ensembl ENCODE 10.5 +170.3 170286 1.0 TBP HDAC1 ATF1 TAF1 JUN HIC1 GATA3 FOS TCF7L2 SMARCE1 CC2D1B GPX7 ZCCHC11 PRPF38A EEF1GP7
GH01F052568 1 Ensembl ENCODE 10 +164.8 164754 2.6 CTCF ESRRA ZMYM3 NFXL1 RAD21 ZNF316 ZFHX2 ZBTB48 SCRT2 EGR2 CC2D1B GPX7 PRPF38A ZCCHC11 EEF1GP7 GC01P052561
GH01F052364 1.1 ENCODE 8.8 -38.9 -38882 3.2 HDGF PKNOX1 CREB3L1 MLX ARID4B SIN3A FEZF1 DMAP1 ZNF143 ZNF207 CC2D1B ORC1 PRPF38A ZCCHC11 ENSG00000272100
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around PRPF38A on UCSC Golden Path with GeneCards custom track

Promoters for PRPF38A Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000077172 53 2801 PKNOX1 ARNT CREB3L1 WRNIP1 ARID4B SIN3A DMAP1 ZNF2 YY1 SLC30A9

Genomic Location for PRPF38A Gene

Chromosome:
1
Start:
52,404,547 bp from pter
End:
52,420,839 bp from pter
Size:
16,293 bases
Orientation:
Plus strand

Genomic View for PRPF38A Gene

Genes around PRPF38A on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
PRPF38A Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for PRPF38A Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for PRPF38A Gene

Proteins for PRPF38A Gene

  • Protein details for PRPF38A Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q8NAV1-PR38A_HUMAN
    Recommended name:
    Pre-mRNA-splicing factor 38A
    Protein Accession:
    Q8NAV1
    Secondary Accessions:
    • Q96JW1
    • Q9BVZ8

    Protein attributes for PRPF38A Gene

    Size:
    312 amino acids
    Molecular mass:
    37477 Da
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • Sequence=BAB55405.1; Type=Erroneous initiation; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for PRPF38A Gene

    Alternative splice isoforms for PRPF38A Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for PRPF38A Gene

Post-translational modifications for PRPF38A Gene

  • Ubiquitination at Lys 23 and Lys 118
  • Modification sites at PhosphoSitePlus

Other Protein References for PRPF38A Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for PRPF38A Gene

Domains & Families for PRPF38A Gene

Protein Domains for PRPF38A Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for PRPF38A Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q8NAV1

UniProtKB/Swiss-Prot:

PR38A_HUMAN :
  • Belongs to the PRP38 family.
Family:
  • Belongs to the PRP38 family.
genes like me logo Genes that share domains with PRPF38A: view

No data available for Gene Families for PRPF38A Gene

Function for PRPF38A Gene

Molecular function for PRPF38A Gene

UniProtKB/Swiss-Prot Function:
May be required for pre-mRNA splicing.

Gene Ontology (GO) - Molecular Function for PRPF38A Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 22365833
GO:0044822 poly(A) RNA binding IDA 22681889
genes like me logo Genes that share ontologies with PRPF38A: view
genes like me logo Genes that share phenotypes with PRPF38A: view

Animal Model Products

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for PRPF38A Gene

Localization for PRPF38A Gene

Subcellular locations from UniProtKB/Swiss-Prot for PRPF38A Gene

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for PRPF38A gene
Compartment Confidence
nucleus 5
cytosol 1

Gene Ontology (GO) - Cellular Components for PRPF38A Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IDA --
GO:0005681 spliceosomal complex IEA --
GO:0031965 nuclear membrane IDA --
GO:0071011 precatalytic spliceosome IBA --
genes like me logo Genes that share ontologies with PRPF38A: view

Pathways & Interactions for PRPF38A Gene

genes like me logo Genes that share pathways with PRPF38A: view

Pathways by source for PRPF38A Gene

Gene Ontology (GO) - Biological Process for PRPF38A Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006397 mRNA processing IEA --
GO:0008380 RNA splicing IEA --
genes like me logo Genes that share ontologies with PRPF38A: view

No data available for SIGNOR curated interactions for PRPF38A Gene

Transcripts for PRPF38A Gene

Unigene Clusters for PRPF38A Gene

PRP38 pre-mRNA processing factor 38 (yeast) domain containing A:
Representative Sequences:

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for PRPF38A Gene

ExUns: 1a · 1b · 1c ^ 2 ^ 3a · 3b ^ 4a · 4b · 4c ^ 5 ^ 6 ^ 7 ^ 8 ^ 9 ^ 10 ^ 11a · 11b
SP1: - -
SP2: - - - - -
SP3:
SP4: -

Relevant External Links for PRPF38A Gene

GeneLoc Exon Structure for
PRPF38A
ECgene alternative splicing isoforms for
PRPF38A

Expression for PRPF38A Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for PRPF38A Gene

Protein differential expression in normal tissues from HIPED for PRPF38A Gene

This gene is overexpressed in Peripheral blood mononuclear cells (14.9), Heart (6.9), and CD8 Tcells (6.3).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for PRPF38A Gene



Protein tissue co-expression partners for PRPF38A Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of PRPF38A Gene:

PRPF38A

SOURCE GeneReport for Unigene cluster for PRPF38A Gene:

Hs.5301
genes like me logo Genes that share expression patterns with PRPF38A: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues and mRNA Expression by UniProt/SwissProt for PRPF38A Gene

Orthologs for PRPF38A Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for PRPF38A Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia PRPF38A 34 35
  • 99.68 (n)
oppossum
(Monodelphis domestica)
Mammalia -- 35
  • 98 (a)
OneToMany
-- 35
  • 84 (a)
OneToMany
dog
(Canis familiaris)
Mammalia PRPF38A 34 35
  • 93.38 (n)
cow
(Bos Taurus)
Mammalia PRPF38A 34 35
  • 92.84 (n)
rat
(Rattus norvegicus)
Mammalia Prpf38a 34
  • 89.32 (n)
mouse
(Mus musculus)
Mammalia Prpf38a 34 16 35
  • 88.46 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia PRPF38A 35
  • 64 (a)
OneToOne
chicken
(Gallus gallus)
Aves PRPF38A 34 35
  • 79.59 (n)
lizard
(Anolis carolinensis)
Reptilia PRPF38A 35
  • 96 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia prpf38a 34
  • 74.06 (n)
African clawed frog
(Xenopus laevis)
Amphibia Xl.1823 34
zebrafish
(Danio rerio)
Actinopterygii prpf38a 34 35
  • 70.51 (n)
-- 34
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.3597 34
fruit fly
(Drosophila melanogaster)
Insecta Prp38 35
  • 54 (a)
OneToOne
worm
(Caenorhabditis elegans)
Secernentea prp-38 35
  • 49 (a)
OneToOne
barley
(Hordeum vulgare)
Liliopsida Hv.10890 34
rice
(Oryza sativa)
Liliopsida Os.6813 34
wheat
(Triticum aestivum)
Liliopsida Ta.25546 34
sea squirt
(Ciona savignyi)
Ascidiacea CSA.6867 35
  • 65 (a)
OneToOne
bread mold
(Neurospora crassa)
Ascomycetes NCU00662 34
  • 54.97 (n)
fission yeast
(Schizosaccharomyces pombe)
Schizosaccharomycetes prp38 34
  • 52.61 (n)
Species where no ortholog for PRPF38A was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • beta proteobacteria (Neisseria meningitidis)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)

Evolution for PRPF38A Gene

ENSEMBL:
Gene Tree for PRPF38A (if available)
TreeFam:
Gene Tree for PRPF38A (if available)

Paralogs for PRPF38A Gene

Pseudogenes.org Pseudogenes for PRPF38A Gene

genes like me logo Genes that share paralogs with PRPF38A: view

No data available for Paralogs for PRPF38A Gene

Variants for PRPF38A Gene

Sequence variations from dbSNP and Humsavar for PRPF38A Gene

SNP ID Clin Chr 01 pos Sequence Context AA Info Type
rs10127490 -- 52,409,115(+) TATAA(A/G)ACTAC intron-variant
rs10128030 -- 52,411,458(+) GTTCA(C/G)GTGCA intron-variant
rs111287567 -- 52,410,582(+) CTGCA(A/C)CCTCT intron-variant
rs111470585 -- 52,414,006(+) AGTCA(C/T)TGGCC intron-variant
rs111879121 -- 52,411,346(+) CCAAG(A/T)TAGTG intron-variant

Variation tolerance for PRPF38A Gene

Residual Variation Intolerance Score: 25.5% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.29; 6.35% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for PRPF38A Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
PRPF38A

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Structural Variations from Database of Genomic Variants (DGV) for PRPF38A Gene

Disorders for PRPF38A Gene

Relevant External Links for PRPF38A

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
PRPF38A

No disorders were found for PRPF38A Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for PRPF38A Gene

Publications for PRPF38A Gene

  1. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 3 4 64
  2. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PMID: 12477932) Strausberg R.L. … Marra M.A. (Proc. Natl. Acad. Sci. U.S.A. 2002) 2 3 64
  3. Multiple protein-protein interactions converging on the Prp38 protein during activation of the human spliceosome. (PMID: 26673105) SchA1tze T. … Wahl M.C. (RNA 2016) 3 64
  4. Interactions of the Antiviral Factor Interferon Gamma-Inducible Protein 16 (IFI16) Mediate Immune Signaling and Herpes Simplex Virus-1 Immunosuppression. (PMID: 25693804) Diner B.A. … Cristea I.M. (Mol. Cell Proteomics 2015) 3 64
  5. SR protein kinases promote splicing of nonconsensus introns. (PMID: 26167880) Lipp J.J. … Guthrie C. (Nat. Struct. Mol. Biol. 2015) 3 64

Products for PRPF38A Gene

Sources for PRPF38A Gene

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