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Aliases for PRPF38B Gene

Aliases for PRPF38B Gene

  • Pre-MRNA Processing Factor 38B 2 3 5
  • Sarcoma Antigen NY-SAR-27 3 4
  • PRP38 Pre-MRNA Processing Factor 38 (Yeast) Domain Containing B 2
  • PRP38 Pre-MRNA Processing Factor 38 Domain Containing B 3
  • NET1 3

External Ids for PRPF38B Gene

Previous GeneCards Identifiers for PRPF38B Gene

  • GC01P108948
  • GC01P109036
  • GC01P109234
  • GC01P107127

Summaries for PRPF38B Gene

GeneCards Summary for PRPF38B Gene

PRPF38B (Pre-MRNA Processing Factor 38B) is a Protein Coding gene. Among its related pathways are Signaling by GPCR and Signaling by Rho GTPases. GO annotations related to this gene include poly(A) RNA binding.

UniProtKB/Swiss-Prot for PRPF38B 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 PRPF38B Gene

Genomics for PRPF38B Gene

Regulatory Elements for PRPF38B Gene

Promoters for PRPF38B Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters

ENSRs around PRPF38B on UCSC Golden Path with GeneCards custom track

Genomic Location for PRPF38B Gene

Chromosome:
1
Start:
108,692,292 bp from pter
End:
108,701,803 bp from pter
Size:
9,512 bases
Orientation:
Plus strand

Genomic View for PRPF38B Gene

Genes around PRPF38B on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
PRPF38B Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for PRPF38B Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for PRPF38B Gene

Proteins for PRPF38B Gene

  • Protein details for PRPF38B Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q5VTL8-PR38B_HUMAN
    Recommended name:
    Pre-mRNA-splicing factor 38B
    Protein Accession:
    Q5VTL8
    Secondary Accessions:
    • Q05DD6
    • Q32Q58
    • Q5VTL9
    • Q6PK39
    • Q7Z6E2
    • Q86WF3
    • Q8IWG9
    • Q9NW40

    Protein attributes for PRPF38B Gene

    Size:
    546 amino acids
    Molecular mass:
    64468 Da
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • Sequence=AAO65168.1; Type=Erroneous initiation; Evidence={ECO:0000305}; Sequence=CAH72070.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305}; Sequence=CAI12934.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};

    Alternative splice isoforms for PRPF38B Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for PRPF38B Gene

Proteomics data for PRPF38B Gene at MOPED

Post-translational modifications for PRPF38B Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for PRPF38B Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for PRPF38B Gene

Domains & Families for PRPF38B Gene

Protein Domains for PRPF38B Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for PRPF38B Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q5VTL8

UniProtKB/Swiss-Prot:

PR38B_HUMAN :
  • Belongs to the PRP38 family.
Family:
  • Belongs to the PRP38 family.
genes like me logo Genes that share domains with PRPF38B: view

No data available for Gene Families for PRPF38B Gene

Function for PRPF38B Gene

Molecular function for PRPF38B Gene

UniProtKB/Swiss-Prot Function:
May be required for pre-mRNA splicing.
genes like me logo Genes that share phenotypes with PRPF38B: view

Animal Model Products

CRISPR Products

No data available for Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for PRPF38B Gene

Localization for PRPF38B Gene

Subcellular locations from UniProtKB/Swiss-Prot for PRPF38B Gene

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for PRPF38B Gene COMPARTMENTS Subcellular localization image for PRPF38B gene
Compartment Confidence
nucleus 5
cytosol 2

No data available for Gene Ontology (GO) - Cellular Components for PRPF38B Gene

Pathways & Interactions for PRPF38B Gene

genes like me logo Genes that share pathways with PRPF38B: view

Pathways by source for PRPF38B Gene

Gene Ontology (GO) - Biological Process for PRPF38B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0008380 RNA splicing IEA --
genes like me logo Genes that share ontologies with PRPF38B: view

No data available for SIGNOR curated interactions for PRPF38B Gene

Drugs & Compounds for PRPF38B Gene

No Compound Related Data Available

Transcripts for PRPF38B Gene

Unigene Clusters for PRPF38B Gene

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

Alternative Splicing Database (ASD) splice patterns (SP) for PRPF38B Gene

ExUns: 1a · 1b ^ 2 ^ 3a · 3b · 3c ^ 4 ^ 5a · 5b ^ 6 ^ 7 ^ 8a · 8b · 8c ^ 9a · 9b
SP1: - -
SP2: - - - - - - -
SP3: - - - - -
SP4: - - - -
SP5: - -
SP6:
SP7: -
SP8:

Relevant External Links for PRPF38B Gene

GeneLoc Exon Structure for
PRPF38B
ECgene alternative splicing isoforms for
PRPF38B

Expression for PRPF38B Gene

mRNA expression in normal human tissues for PRPF38B Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for PRPF38B Gene

This gene is overexpressed in Lymph node (13.2), Peripheral blood mononuclear cells (10.2), and NK cells (9.7).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MOPED, and MaxQB for PRPF38B Gene



SOURCE GeneReport for Unigene cluster for PRPF38B Gene Hs.342307

genes like me logo Genes that share expression patterns with PRPF38B: view

Protein tissue co-expression partners for PRPF38B Gene

- Elite partner

Primer Products

In Situ Assay Products

No data available for mRNA differential expression in normal tissues and mRNA Expression by UniProt/SwissProt for PRPF38B Gene

Orthologs for PRPF38B Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for PRPF38B Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia PRPF38B 36
  • 100 (a)
OneToOne
PRPF38B 35
  • 99.94 (n)
  • 100 (a)
cow
(Bos Taurus)
Mammalia PRPF38B 36
  • 97 (a)
OneToOne
PRPF38B 35
  • 92.76 (n)
  • 96.69 (a)
dog
(Canis familiaris)
Mammalia PRPF38B 35
  • 94.14 (n)
  • 98.17 (a)
PRPF38B 36
  • 98 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Prpf38b 16
Prpf38b 35
  • 86.08 (n)
  • 91.31 (a)
Prpf38b 36
  • 94 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia PRPF38B 36
  • 94 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia PRPF38B 36
  • 91 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Prpf38b 35
  • 88.75 (n)
  • 94.46 (a)
chicken
(Gallus gallus)
Aves PRPF38B 35
  • 80.95 (n)
  • 88.26 (a)
PRPF38B 36
  • 87 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia PRPF38B 36
  • 85 (a)
OneToOne
African clawed frog
(Xenopus laevis)
Amphibia Xl.8346 35
tropical clawed frog
(Silurana tropicalis)
Amphibia prpf38b 35
  • 78.01 (n)
  • 87.97 (a)
Str.11052 35
zebrafish
(Danio rerio)
Actinopterygii prpf38b 36
  • 66 (a)
OneToOne
prpf38b 35
  • 73.91 (n)
  • 84.64 (a)
wufc43b05 35
fruit fly
(Drosophila melanogaster)
Insecta CG1622 36
  • 48 (a)
OneToOne
worm
(Caenorhabditis elegans)
Secernentea Y108G3AL.2 36
  • 39 (a)
OneToOne
rice
(Oryza sativa)
Liliopsida Os.10119 35
sea squirt
(Ciona intestinalis)
Ascidiacea Cin.9541 35
sea squirt
(Ciona savignyi)
Ascidiacea CSA.10416 36
  • 57 (a)
OneToOne
Species with no ortholog for PRPF38B:
  • 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)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • 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)
  • rainbow trout (Oncorhynchus mykiss)
  • 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)
  • wheat (Triticum aestivum)

Evolution for PRPF38B Gene

ENSEMBL:
Gene Tree for PRPF38B (if available)
TreeFam:
Gene Tree for PRPF38B (if available)

Paralogs for PRPF38B Gene

No data available for Paralogs for PRPF38B Gene

Variants for PRPF38B Gene

Sequence variations from dbSNP and Humsavar for PRPF38B Gene

SNP ID Clin Chr 01 pos Sequence Context AA Info Type
rs2297562 -- 108,698,945(+) TTGTC(A/G/T)CTTTT intron-variant, downstream-variant-500B
rs2297563 -- 108,699,047(+) TTCTT(A/G)ACATG intron-variant, downstream-variant-500B
rs6673915 -- 108,694,369(+) TTTTT(A/T)AGTTT intron-variant
rs11544312 -- 108,700,098(+) TTGTG(C/T)AGTAG nc-transcript-variant, utr-variant-3-prime
rs12401944 -- 108,696,457(+) AGTGA(A/G)ATACT intron-variant, upstream-variant-2KB

Variation tolerance for PRPF38B Gene

Residual Variation Intolerance Score: 25.1% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 2.20; 39.70% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for PRPF38B Gene

HapMap Linkage Disequilibrium report
PRPF38B

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Structural Variations from Database of Genomic Variants (DGV) for PRPF38B Gene

Disorders for PRPF38B Gene

Relevant External Links for PRPF38B

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
PRPF38B

No disorders were found for PRPF38B Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for PRPF38B Gene

Publications for PRPF38B Gene

  1. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 3 4 67
  2. The BioPlex Network: A Systematic Exploration of the Human Interactome. (PMID: 26186194) Huttlin E.L. … Gygi S.P. (Cell 2015) 3
  3. Panorama of ancient metazoan macromolecular complexes. (PMID: 26344197) Wan C. … Emili A. (Nature 2015) 3
  4. Identification of UHRF1/2 as new N-methylpurine DNA glycosylase-interacting proteins. (PMID: 23537643) Liang C. … Zhang L. (Biochem. Biophys. Res. Commun. 2013) 3
  5. Insights into RNA biology from an atlas of mammalian mRNA-binding proteins. (PMID: 22658674) Castello A. … Hentze M.W. (Cell 2012) 3

Products for PRPF38B Gene

Sources for PRPF38B Gene

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