ID   PRP39_DANRE             Reviewed;         752 AA.
AC   Q1JPZ7; Q801W4;
DT   31-OCT-2006, integrated into UniProtKB/Swiss-Prot.
DT   31-OCT-2006, sequence version 2.
DT   03-AUG-2022, entry version 90.
DE   RecName: Full=Pre-mRNA-processing factor 39;
DE   AltName: Full=PRP39 homolog;
GN   Name=prpf39; ORFNames=si:dz261o22.3;
OS   Danio rerio (Zebrafish) (Brachydanio rerio).
OC   Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
OC   Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes;
OC   Danionidae; Danioninae; Danio.
OX   NCBI_TaxID=7955;
RN   [1]
RP   NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC   STRAIN=Tuebingen;
RX   PubMed=23594743; DOI=10.1038/nature12111;
RA   Howe K., Clark M.D., Torroja C.F., Torrance J., Berthelot C., Muffato M.,
RA   Collins J.E., Humphray S., McLaren K., Matthews L., McLaren S., Sealy I.,
RA   Caccamo M., Churcher C., Scott C., Barrett J.C., Koch R., Rauch G.J.,
RA   White S., Chow W., Kilian B., Quintais L.T., Guerra-Assuncao J.A., Zhou Y.,
RA   Gu Y., Yen J., Vogel J.H., Eyre T., Redmond S., Banerjee R., Chi J., Fu B.,
RA   Langley E., Maguire S.F., Laird G.K., Lloyd D., Kenyon E., Donaldson S.,
RA   Sehra H., Almeida-King J., Loveland J., Trevanion S., Jones M., Quail M.,
RA   Willey D., Hunt A., Burton J., Sims S., McLay K., Plumb B., Davis J.,
RA   Clee C., Oliver K., Clark R., Riddle C., Elliot D., Threadgold G.,
RA   Harden G., Ware D., Begum S., Mortimore B., Kerry G., Heath P.,
RA   Phillimore B., Tracey A., Corby N., Dunn M., Johnson C., Wood J., Clark S.,
RA   Pelan S., Griffiths G., Smith M., Glithero R., Howden P., Barker N.,
RA   Lloyd C., Stevens C., Harley J., Holt K., Panagiotidis G., Lovell J.,
RA   Beasley H., Henderson C., Gordon D., Auger K., Wright D., Collins J.,
RA   Raisen C., Dyer L., Leung K., Robertson L., Ambridge K., Leongamornlert D.,
RA   McGuire S., Gilderthorp R., Griffiths C., Manthravadi D., Nichol S.,
RA   Barker G., Whitehead S., Kay M., Brown J., Murnane C., Gray E.,
RA   Humphries M., Sycamore N., Barker D., Saunders D., Wallis J., Babbage A.,
RA   Hammond S., Mashreghi-Mohammadi M., Barr L., Martin S., Wray P.,
RA   Ellington A., Matthews N., Ellwood M., Woodmansey R., Clark G., Cooper J.,
RA   Tromans A., Grafham D., Skuce C., Pandian R., Andrews R., Harrison E.,
RA   Kimberley A., Garnett J., Fosker N., Hall R., Garner P., Kelly D., Bird C.,
RA   Palmer S., Gehring I., Berger A., Dooley C.M., Ersan-Urun Z., Eser C.,
RA   Geiger H., Geisler M., Karotki L., Kirn A., Konantz J., Konantz M.,
RA   Oberlander M., Rudolph-Geiger S., Teucke M., Lanz C., Raddatz G.,
RA   Osoegawa K., Zhu B., Rapp A., Widaa S., Langford C., Yang F.,
RA   Schuster S.C., Carter N.P., Harrow J., Ning Z., Herrero J., Searle S.M.,
RA   Enright A., Geisler R., Plasterk R.H., Lee C., Westerfield M.,
RA   de Jong P.J., Zon L.I., Postlethwait J.H., Nusslein-Volhard C.,
RA   Hubbard T.J., Roest Crollius H., Rogers J., Stemple D.L.;
RT   "The zebrafish reference genome sequence and its relationship to the human
RT   genome.";
RL   Nature 496:498-503(2013).
RN   [2]
RP   NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
RC   STRAIN=AB; TISSUE=Skin;
RG   NIH - Zebrafish Gene Collection (ZGC) project;
RL   Submitted (JAN-2003) to the EMBL/GenBank/DDBJ databases.
CC   -!- FUNCTION: Involved in pre-mRNA splicing. {ECO:0000250}.
CC   -!- SUBCELLULAR LOCATION: Nucleus {ECO:0000250}.
CC   -!- SIMILARITY: Belongs to the PRP39 family. {ECO:0000305}.
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DR   EMBL; AL591492; CAD87784.1; -; Genomic_DNA.
DR   EMBL; BC116540; AAI16541.1; -; mRNA.
DR   RefSeq; NP_001004520.1; NM_001004520.1.
DR   AlphaFoldDB; Q1JPZ7; -.
DR   SMR; Q1JPZ7; -.
DR   STRING; 7955.ENSDARP00000061671; -.
DR   PaxDb; Q1JPZ7; -.
DR   PRIDE; Q1JPZ7; -.
DR   Ensembl; ENSDART00000170482; ENSDARP00000139799; ENSDARG00000100209.
DR   GeneID; 368864; -.
DR   KEGG; dre:368864; -.
DR   CTD; 55015; -.
DR   ZFIN; ZDB-GENE-030616-420; prpf39.
DR   eggNOG; KOG1258; Eukaryota.
DR   GeneTree; ENSGT00390000005033; -.
DR   HOGENOM; CLU_007434_2_0_1; -.
DR   InParanoid; Q1JPZ7; -.
DR   OMA; NYCAFKV; -.
DR   OrthoDB; 887474at2759; -.
DR   PhylomeDB; Q1JPZ7; -.
DR   TreeFam; TF314746; -.
DR   PRO; PR:Q1JPZ7; -.
DR   Proteomes; UP000000437; Genome assembly.
DR   Proteomes; UP000814640; Chromosome 20.
DR   Bgee; ENSDARG00000100209; Expressed in somite and 27 other tissues.
DR   GO; GO:0000243; C:commitment complex; IBA:GO_Central.
DR   GO; GO:0005685; C:U1 snRNP; IBA:GO_Central.
DR   GO; GO:0071004; C:U2-type prespliceosome; IBA:GO_Central.
DR   GO; GO:0000395; P:mRNA 5'-splice site recognition; IBA:GO_Central.
DR   Gene3D; 1.25.40.10; -; 2.
DR   InterPro; IPR003107; HAT.
DR   InterPro; IPR011990; TPR-like_helical_dom_sf.
DR   SMART; SM00386; HAT; 7.
DR   SUPFAM; SSF48452; SSF48452; 2.
PE   2: Evidence at transcript level;
KW   mRNA processing; mRNA splicing; Nucleus; Reference proteome; Repeat.
FT   CHAIN           1..752
FT                   /note="Pre-mRNA-processing factor 39"
FT                   /id="PRO_0000259650"
FT   REPEAT          180..212
FT                   /note="HAT 1"
FT   REPEAT          214..246
FT                   /note="HAT 2"
FT   REPEAT          254..289
FT                   /note="HAT 3"
FT   REPEAT          408..440
FT                   /note="HAT 4"
FT   REPEAT          442..474
FT                   /note="HAT 5"
FT   REPEAT          700..731
FT                   /note="HAT 6"
FT   REGION          1..148
FT                   /note="Disordered"
FT                   /evidence="ECO:0000256|SAM:MobiDB-lite"
FT   REGION          347..374
FT                   /note="Disordered"
FT                   /evidence="ECO:0000256|SAM:MobiDB-lite"
FT   REGION          678..703
FT                   /note="Disordered"
FT                   /evidence="ECO:0000256|SAM:MobiDB-lite"
FT   COMPBIAS        9..60
FT                   /note="Polar residues"
FT                   /evidence="ECO:0000256|SAM:MobiDB-lite"
FT   COMPBIAS        69..101
FT                   /note="Polar residues"
FT                   /evidence="ECO:0000256|SAM:MobiDB-lite"
FT   COMPBIAS        678..698
FT                   /note="Basic and acidic residues"
FT                   /evidence="ECO:0000256|SAM:MobiDB-lite"
FT   CONFLICT        10
FT                   /note="G -> R (in Ref. 2; AAI16541)"
FT                   /evidence="ECO:0000305"
FT   CONFLICT        217
FT                   /note="Q -> R (in Ref. 2; AAI16541)"
FT                   /evidence="ECO:0000305"
FT   CONFLICT        355
FT                   /note="A -> T (in Ref. 2; AAI16541)"
FT                   /evidence="ECO:0000305"
SQ   SEQUENCE   752 AA;  85947 MW;  764733541159D874 CRC64;
     MEDSGESMTG MLDSKSPESG DSPAMEGTTG TDDVTGLSTS DLTTEQPPES QEQTQPVSDM
     EFSVEHLKTA VQNIDQSASP AEPAAENSEQ PPESNGQQED QSEQPDDVKE AGQGDSESPS
     NMELEDAPKE PAEPAAEADP AAPQEPELPT EYERLSKVVE DNPEDFNGWV YLLQYVEQEN
     HLLGSRKAFD AFFLHYPYCY GYWKKYADIE RKHGYIQMAD EVYRRGLQAI PLSVDLWLHY
     ITFLRENQDT SDGEAESRIR ASYEHAVLAC GTDFRSDRLW EAYIAWETEQ GKLANVTAIY
     DRLLCIPTQL YSQHFQKFKD HVQSNNPKHF LSEEEFVSLR VELANANKPS GDEDAETEAP
     GEELPPGTED LPDPAKRVTE IENMRHKVIE TRQEMFNHNE HEVSKRWAFE EGIKRPYFHV
     KALEKTQLNN WREYLDFELE NGTPERVVVL FERCLIACAL YEEFWIKYAK YLESYSTEAV
     RHIYKKACTV HLPKKPNVHL LWAAFEEQQG SIDEARSILK AVEVSVPGLA MVRLRRVSLE
     RRHGNMEEAE ALLQDAITNG RNSSESSFYS VKLARQLVKV QKSIGRAKKV LLEAVEKDET
     NPKLYLNLLE LEYSGDVQQN EAEIIACFDR ALSSSMALES RITFSQRKVD FLEDFGSDIN
     TLMAAYEQHQ RLLAEQESFK RKAENGSEEP DAKRQRTDDQ SVASGQMMDM QANHAGYNYN
     NWYQYNSWGS QNSWGQYGQY GQYNQYYPPP PT