prpf39 (prpf39)


Basic Information

Item Value
gene id prpf39
gene name prpf39
gene type coding
species striped catfish (Pangasianodon hypophthalmus)
category of species economic fish

Chromosome Information

Item Value
chromosome id NC_047613.1
NCBI id CM018559.1
chromosome length 22090854
location 9618830 ~ 9626110 (+)
genome version GENO_Phyp_1.0_2019_striped_catfish_Genome

Sequence

>XM_026944519.2
cagtgcgcatgcgcgggACGGTCTTGCCCTTGTGTAGCTGCGCTGTGGTGTGAGGAAGTGTAGCATGAGCGCTCGGTACCGCGACCACATGTTGTTGAACAGATAACTTCAAAAGTTGAGAGAAATTTTTCTGCAAACAAAATTTCATGGAACAATCTGATCCACAGCTCTCGGACGAGGCCATGACGGGGATGGTTGGTGCAGATGCCTCCGACAATGGGAATGCTACTGCTATGGAAGGTGCAGGAGACAGCTTCGTTCCTGACCTTCCTAACATGGCTCCTGATGCTCAGTGGACAATGGACCAAGTACCTGACACTTTTGGTGGTCTTGCAAATCAGCAGAACCCAGAACAAGGCCAGGTGGAGCAGTACGAACAGTACTTGGTAGATGGGCAGTCACAGTCTTCAATGGGGCAAAAATCTGACCTTTCCGAACAGCACGATAATTCAACATATGTTGATGGAAATCAGCCGGAAACAAACGGACAGGCTGCAGAGGGTCATCTCAAAGAGTCTGAGTTGAGCTCAGAAAAGCAGGCTGAAACAGGCAGTTCGGACAGCCCAGCGAATATGGAGCTTGAGGATGGGTCCAAAGAGGGAAGTGAAGTAGATGCCTCACTGTCAAAACCTTCGCTCCCCACTGATTTCGACAGGCTCTATAAGGTAGTTGAGGATGATCCTGAGGACTTTAATGGCTGGGTCTACCTTCTGCAATATGTTGAACAAGAGAATCACCTGTTGGCTTCGAGAAAGGCATTTGATGCCTTTTTTCTACGCTATCCCTATTGTTACGGCTATTGGAAGAAATATGCAGACATAGAAAAAAAGCATGGCTGCATACAGGAGGCGGATGAGGTGTATCGAAGAGGTCTGCAGGCCATCCCACTCAGCGTTGACCTTTGGCTTCATTATATAACTTTCTTAAAGGAGAATCAAGACACTAGTGATGGAGAAGCTGAGAATCGCATACGAGCTGCCTATGAGCATGCAGTTCTTGCTGCGGGTACAGACTTCCGGTCAGACCGTCTGTGGGAAGCTTATATTAGCTGGGAGACTGAGCAGGACAAGTTGGCCAATGTTACAGCAATTTATGACCGTGTCCTGGGTATTCCTACTCAGCTGTATTCCCAGCACTTCCAGAGGTTCAAGGATCATGTGCAAAACAATAATCCCAAGCACTTCCTGTCTGAAGAGGAGTTTGTTCAGCTAAGGTTGGAACTTGCAGCTGCCAATAAGCCCagtggagagggagaggaggaaacCCCCAGTGAGGAGCTACCACCAGGCACAGAAGACCTTCCTGACCCAGCAAAGAGAGTCACAGAGATCGAGAACATGCGACATAAGGTGATCGAGACGCGTCAAGAGATATTTAACCACAATGAACATGAAGTCAGCAAGCGCTGGGCCTTTGAAGAAGGGATCAAGCGTCCATATTTCCATGTGAAAGCCTTGGAGAAGACTCAGCTTACCAACTGGAGGGAGTACCTGGACTTTGAGCTGGAGAACGGGACACCGGAGCGTGTAGTGGTTCTGTTTGAGCGCTGCCTGATCGCCTGTGCCCTGTACGAGGAGTTTTGGATAAAGTATGCCAAGTACCTGGAGAGCTACAGCACAGAGGGAGTGAGGCACATCTTCAAGAAAGCATGCACCGTCCACCTGCCAAAAAAGCCTACCATCCATGTTCTCTGGGCAGCTTTTGAGGAACAACAAGGGAACATTGATGAGGCTCGAGGCATCCTGAAAAGTCTAGAGGAGGCAGTTCCTGGTTTGGCCATGGTGAGACTACGTCGTGTGAGCCTTGAACGTCGCCACGGGAACTTGGATGAAGCAGTAGCTCTTCTGGAGGACGCCATCAAGAATGCAAAAAACACAAGTGAATCGACCTTCTTCTCCGTGAAGCTGGCTAGGCAATTCTTCAAAGTACAGAGGAGTGTTGGAAAGGCTAAAAAAGTATTGCTAGAGGCCATTGAAAAGGATGAGACCAGTCCCAAGCTCTACCTGAACCTGCTGGAACTGGAGTACAGTGGAGACGTGCAGCAGAACGAGGCAGAGATCTTGGCATGCTTCGACCGGGCGCTCAGCAGCACCATGCCGTTAGAGGCGCGTGTAACTTTCTCACAGCGAAAAGTAGAGTTTCTGGAGGACTTTGGAAGCGATATAAATGTgCTTGTAGCTTCTTATGAACAGCATCAAAAACTTATGAAAGAGCAGGAGTCCACGAAGAGGAAAGCAGAAAATGGGTCACAAGAGCCAGATTCAAAGAGACAGCGCATGGACGATGGCTCAGTGGCATCTGGCCAGATGATGCCAGACATGCAAGCCAATCACGGAGGATACAACTATAATAACTGgtatcagcaataCAACTCCTGGGGAAGTCAGAACACCTGGGGCCAGTACGGCCAGTATGGCCAGTATAACCAGTACTACCCCCCACCCCCGACATGAATGGCGTACAGTCTGATGGAGTGACGCTGAAGTCCCTTTTACCTGTTCTTATTGCTACTCTTGACATTCTCAGTCATTTGACATGTTTCTTTGTGTTCTGAGCATGTGTGTTGGAAGTGaagtttctttttctgtaaaaagGTGTGGATGCTTCATTTTAGCTTGATTTAGTGTGGTCTCTTTGGAAATTTAGTTGTTTTGGATGAATTAAATTTGTATGGAAGCAAGTAGAAAATTCTGAAACCCTGTATCTGCCCTCCTAAATGATTCATCACTGTTTTCAGAGCCAAATGTGAAATGAAggctttttattttgaattaatttcataataaagaGATTGCTGAGA
>XM_026944520.2
CAGGcgcagtgcgcatgcgcgggACGGTCTTGCCCTTGTGTAGCTGCGCTGTGGTGTGAGGAAGTGTAGCATGAGCGCTCGGTACCGCGACCACATGTTGTTGAACAGATAACTTCAAAAGTTGAGAGAAATTTTTCTGCAAACAAAATTTCATGGAACAATCTGATCCACAGCTCTCGGACGAGGCCATGACGGGGATGGTTGGTGCAGATGCCTCCGACAATGGGAATGCTACTGCTATGGAAGGTGCAGGAGACAGCTTCGTTCCTGACCTTCCTAACATGGCTCCTGATGCTCAGTGGACAATGGACCAAGTACCTGACACTTTTGGTGGTCTTGCAAATCAGCAGAACCCAGAACAAGGCCAGGTGGAGCAGTACGAACAGTACTTGGTAGATGGGCAGTCACAGTCTTCAATGGGGCAAAAATCTGACCTTTCCGAACAGCACGATAATTCAACATATGTTGATGGAAATCAGCCGGAAACAAACGGACAGGCTGCAGAGGGTCATCTCAAAGAGTCTGAGTTGAGCTCAGAAAAGCAGGCTGAAACAGGCAGTTCGGACAGCCCAGCGAATATGGAGCTTGAGGATGGGTCCAAAGAGGGAAGTGAAGTAGATGCCTCACTGTCAAAACCTTCGCTCCCCACTGATTTCGACAGGCTCTATAAGGTAGTTGAGGATGATCCTGAGGACTTTAATGGCTGGGTCTACCTTCTGCAATATGTTGAACAAGAGAATCACCTGTTGGCTTCGAGAAAGGCATTTGATGCCTTTTTTCTACGCTATCCCTATTGTTACGGCTATTGGAAGAAATATGCAGACATAGAAAAAAAGCATGGCTGCATACAGGAGGCGGATGAGGTGTATCGAAGAGGTCTGCAGGCCATCCCACTCAGCGTTGACCTTTGGCTTCATTATATAACTTTCTTAAAGGAGAATCAAGACACTAGTGATGGAGAAGCTGAGAATCGCATACGAGCTGCCTATGAGCATGCAGTTCTTGCTGCGGGTACAGACTTCCGGTCAGACCGTCTGTGGGAAGCTTATATTAGCTGGGAGACTGAGCAGGACAAGTTGGCCAATGTTACAGCAATTTATGACCGTGTCCTGGGTATTCCTACTCAGCTGTATTCCCAGCACTTCCAGAGGTTCAAGGATCATGTGCAAAACAATAATCCCAAGCACTTCCTGTCTGAAGAGGAGTTTGTTCAGCTAAGGTTGGAACTTGCAGCTGCCAATAAGCCCagtggagagggagaggaggaaacCCCCAGTGAGGAGCTACCACCAGGCACAGAAGACCTTCCTGACCCAGCAAAGAGAGTCACAGAGATCGAGAACATGCGACATAAGGTGATCGAGACGCGTCAAGAGATATTTAACCACAATGAACATGAAGTCAGCAAGCGCTGGGCCTTTGAAGAAGGGATCAAGCGTCCATATTTCCATGTGAAAGCCTTGGAGAAGACTCAGCTTACCAACTGGAGGGAGTACCTGGACTTTGAGCTGGAGAACGGGACACCGGAGCGTGTAGTGGTTCTGTTTGAGCGCTGCCTGATCGCCTGTGCCCTGTACGAGGAGTTTTGGATAAAGTATGCCAAGTACCTGGAGAGCTACAGCACAGAGGGAGTGAGGCACATCTTCAAGAAAGCATGCACCGTCCACCTGCCAAAAAAGCCTACCATCCATGTTCTCTGGGCAGCTTTTGAGGAACAACAAGGGAACATTGATGAGGCTCGAGGCATCCTGAAAAGTCTAGAGGAGGCAGTTCCTGGTTTGGCCATGGTGAGACTACGTCGTGTGAGCCTTGAACGTCGCCACGGGAACTTGGATGAAGCAGTAGCTCTTCTGGAGGACGCCATCAAGAATGCAAAAAACACAAGTGAATCGACCTTCTTCTCCGTGAAGCTGGCTAGGCAATTCTTCAAAGTACAGAGGAGTGTTGGAAAGGCTAAAAAAGTATTGCTAGAGGCCATTGAAAAGGATGAGGTAAAATGGCTTTTCACAAGACTTGAATCTACACCTTCATCATCTGTCACATAACTGAAGAGATTAACAATGATGACAGACCAGTCCCAAGCTCTACCTGAACCTGCTGGAACTGGAGTACAGTGGAGACGTGCAGCAGAACGAGGCAGAGATCTTGGCATGCTTCGACCGGGCGCTCAGCAGCACCATGCCGTTAGAGGCGCG

Function

symbol description
prpf39 Predicted to be involved in mRNA 5'-splice site recognition. Predicted to act upstream of or within RNA splicing and mRNA processing. Predicted to be located in nucleus. Predicted to be part of U1 snRNP; U2-type prespliceosome; and commitment complex. Orthologous to human PRPF39 (pre-mRNA processing factor 39).

NR:

description
PREDICTED: pre-mRNA-processing factor 39 isoform X1

GO:

id name namespace
GO:0006397 mRNA processing biological_process
GO:0008380 RNA splicing biological_process
GO:0005634 nucleus cellular_component

KEGG:

id description
K13217 PRPF39, PRP39; pre-mRNA-processing factor 39

RNA

RNA id representative length rna type GC content exon number start site end site
XM_026944519.2 True 2800 mRNA 0.48 14 9618836 9626110
XM_026944520.2 False 2195 mRNA 0.49 11 9618830 9624850

Neighbor

gene id symbol gene type direction distance location
LOC113545275 LOC108257654 coding upstream 41272 9574351 ~ 9577558 (+)
LOC113545265 c25h14orf37,LOC107717645,LOC107659812,LOC107574488,LOC107713862 coding upstream 66889 9542408 ~ 9551941 (+)
entpd5b LOC108257529 coding upstream 113704 9495245 ~ 9505126 (+)
yy1b yy1a,LOC108258103,LOC108411685,LOC107712210,LOC101066055 coding upstream 144666 9463981 ~ 9474164 (+)
evlb evlb,LOC108258102,LOC108411639,LOC103359910 coding upstream 155297 9426445 ~ 9463533 (+)
faua fau,LOC108411505,LOC105017549 coding downstream 1468 9627578 ~ 9631109 (+)
ypel5 ypel5,slc30a10,LOC107568027,LOC102210471,LOC102788175,LOC108441457,LOC103458748 coding downstream 41571 9667681 ~ 9672528 (+)
mylk4b mylk4,LOC108257896,LOC101163967,LOC103463388 coding downstream 291255 9917365 ~ 9941395 (+)
gmds gmds,LOC107711642 coding downstream 319680 9945790 ~ 10025924 (+)
exoc2 exoc2,LOC107721345,LOC107711641,LOC107665386,LOC107659211 coding downstream 465259 10091369 ~ 10121300 (+)
G292754 arf6,arf6a,arf6.2,ARF6,LOC106608083,LOC105893149,LOC101063995 non-coding upstream 2239 9613425 ~ 9616591 (+)
G292756 NA non-coding upstream 6218 9611988 ~ 9612612 (+)
G292771 NA non-coding upstream 30927 9587700 ~ 9587903 (+)
G292765 NA non-coding upstream 64023 9554437 ~ 9554807 (+)
G292643 NA non-coding upstream 203254 9414551 ~ 9415576 (+)
G292929 NA non-coding downstream 242039 9868149 ~ 9868609 (+)
G293095 LOC108257535,LOC107682698 non-coding downstream 410341 10036451 ~ 10038355 (+)
G293110 NA non-coding downstream 437655 10063765 ~ 10064011 (+)
LOC117599717 NA non-coding downstream 572739 10198849 ~ 10210998 (+)
G293350 NA non-coding downstream 910854 10536964 ~ 10537640 (+)
LOC113545247 plcb1,LOC108258091 other upstream 439657 9074028 ~ 9179173 (+)
G292216 trmt6 other upstream 621834 8993513 ~ 8996996 (+)
LOC113545369 NA other upstream 1084330 8488647 ~ 8534500 (+)
nudt14 nudt14,LOC107718404,LOC107683965 other upstream 1544386 8043386 ~ 8074444 (+)
atp5mpl NA other upstream 1836822 7777597 ~ 7782008 (+)
G293016 ileu other downstream 277640 9903750 ~ 9950731 (+)
LOC117599798 NA other downstream 532845 10158955 ~ 10170739 (+)
LOC117599733 NA other downstream 1055200 10681310 ~ 10682664 (+)
G293528 NA other downstream 1392296 11018406 ~ 11024973 (+)
pak6b pak6,LOC108257961,LOC108411385 other downstream 1935312 11561422 ~ 11579249 (+)

Expression


Co-expression Network