Gene

prpf38a

ID

ZDB-GENE-040801-225

Name

pre-mRNA processing factor 38A

Symbol

prpf38a Nomenclature History

Previous Names

fa04h11
fc83e08
wu:fa04h11
wu:fc83e08
zgc:92059 (1)

Type

protein_coding_gene

Location

Chr: 6 Mapping Details/Browsers

Description

Predicted to be involved in mRNA splicing, via spliceosome. Predicted to act upstream of or within RNA splicing and mRNA processing. Predicted to be located in nucleus. Predicted to be part of U2-type precatalytic spliceosome. Orthologous to human PRPF38A (pre-mRNA processing factor 38A).

Genome Resources

Note

None

Comparative Information

Expression

All Expression Data

1 figure from Thisse et al., 2004

Cross-Species Comparison

High Throughput Data

GEO (1)

Expression Atlas

UO scRNA-seq (UCSC browser)

Single Cell Expression Atlas

Daniocell

Thisse Expression Data

MGC:92059 (1 image)

Wild Type Expression Summary

Phenotype

All Phenotype Data: No data available
Cross-Species Comparison: Alliance

Phenotype Summary

Mutations

Mutants

Allele	Type	Localization	Consequence	Mutagen	Supplier
sa14323	Allele with one point mutation	Unknown	Premature Stop	ENU	European Zebrafish Resource Center (EZRC) (order this) Zebrafish International Resource Center (ZIRC) (order this)

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Sequence Targeting Reagents

No data available

Human Disease

Associated With prpf38a Human Ortholog

No data available

Associated With prpf38a Via Experimental Models

No data available

Gene Ontology

Protein Domains

Domain, Family, and Site Summary

Type	InterPro ID	Name
Domain	IPR024767	Pre-mRNA-splicing factor 38, C-terminal
Family	IPR005037	Pre-mRNA-splicing factor 38

Domain Details Per Protein

Protein	Additional Resources	Length	Pre-mRNA-splicing factor 38	Pre-mRNA-splicing factor 38, C-terminal
UniProtKB:Q6DHU4	InterPro	313

Transcripts

Genome Browsers

Genome Build: GRCz11Chromosome: 6

Type	Name	Annotation Method	Has Havana Data	Length (nt)	Analysis
mRNA	prpf38a-201 (1) Ensembl	Ensembl		1,308 nt	Select Tool ZFIN BLAST

Interactions and Pathways

No data available

Antibodies

No data available

Plasmids

No data available

Constructs

No data available

Marker Relationships

Relationship	Marker Type	Marker	Accession Numbers	Citations
Contained in	BAC	CH211-175H18	CR854855	ZFIN Curated Data
Encodes	EST	fa04h11	AA497285 AA497368
Encodes	EST	fc83e08	AI943044
Encodes	cDNA	MGC:92059	BC075873	ZFIN Curated Data
Encodes	cDNA	MGC:173831	BC152173	ZFIN Curated Data

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Sequences

Type	Accession #	Length (nt/aa)	Analysis
RNA	RefSeq:NM_001003483 (1)	1304 nt	Select Tool ZFIN BLAST NCBI BLAST Ensembl UCSC BLAT
Genomic	GenBank:AL807381 (1)	230718 nt	Select Tool MegaBLAST
Polypeptide	UniProtKB:Q6DHU4 (1)	313 aa	Select Tool ZFIN BLAST SIB BLAST Ensembl Protein Blast

Orthology

Comparative Orthology: Alliance
Gene Tree: Ensembl

Species	Symbol	Chromosome	Accession #	Evidence
Human	PRPF38A	1	Ensembl:ENSG00000134748 Gene:84950 HGNC:25930 OMIM:617031	Amino acid sequence comparison (1) Conserved genome location (synteny) (1)

Citations

Include unpublished citations

Strausberg,R.L., Feingold,E.A., Grouse,L.H., Derge,J.G., Klausner,R.D., Collins,F.S., Wagner,L., Shenmen,C.M., Schuler,G.D., Altschul,S.F., Zeeberg,B., Buetow,K.H., Schaefer,C.F., Bhat,N.K., Hopkins,R.F., Jordan,H., Moore,T., Max,S.I., Wang,J., Hsieh,F., Diatchenko,L., Marusina,K., Farmer,A.A., Rubin,G.M., Hong,L., Stapleton,M., Soares,M.B., Bonaldo,M.F., Casavant,T.L., Scheetz,T.E., Brownstein,M.J., Usdin,T.B., Toshiyuki,S., Carninci,P., Prange,C., Raha,S.S., Loquellano,N.A., Peters,G.J., Abramson,R.D., Mullahy,S.J., Bosak,S.A., McEwan,P.J., McKernan,K.J., Malek,J.A., Gunaratne,P.H., Richards,S., Worley,K.C., Hale,S., Garcia,A.M., Gay,L.J., Hulyk,S.W., Villalon,D.K., Muzny,D.M., Sodergren,E.J., Lu,X., Gibbs,R.A., Fahey,J., Helton,E., Ketteman,M., Madan,A., Rodrigues,S., Sanchez,A., Whiting,M., Madan,A., Young,A.C., Shevchenko,Y., Bouffard,G.G., Blakesley,R.W., Touchman,J.W., Green,E.D., Dickson,M.C., Rodriguez,A.C., Grimwood,J., Schmutz,J., Myers,R.M., Butterfield,Y.S., Krzywinski,M.I., Skalska,U., Smailus,D.E., Schnerch,A., Schein,J.E., Jones,S.J., and Marra,M.A. (2002) Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Proceedings of the National Academy of Sciences of the United States of America. 99(26):16899-903

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