XLOC_010457 (prpf3)


Basic Information

Item Value
gene id XLOC_010457
gene name prpf3
gene type coding
species zebrafish (Danio rerio)
category of species model fish

Chromosome Information

Item Value
chromosome id NC_007127.7
NCBI id CM002900.2
chromosome length 55266484
location 9433738 ~ 9453591 (-)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00020538
GTTTACTCGTTGGGAAACGTTTAGCCAACACTGGGTGCAGTGAAGTCCAGATACATTTTCTCACTTTGTGTAAATAACCTATTTTATCATCAACGGTTGTTTTGGGTAAAGAAACAAAAttgaaaagtttaaataaaaacgaGAAAGCTTCGTAGATCGCCGTGAACCATCTGGAGAGTGACAGAGATTTTTCTCCAGGATGTCACTGCCTAAACGTGAGGTTGATGAACTGAGGCCATGGGTGGAACGCACAGTAAAGAAGGTCCTTGGCTTCTCTGAACCCACTGTGGTCACAGCAGCATTGCATTGTGTGGGAAAAGGCTTAGACAAAAGAAAAACCATAGatcagctAAGACCATTTCTTGATGATTCGGCAAGCAGTTTCGTTGAGCGTCTGTTTGAAGCTCTCGAGGAAAGCAGAAACTCTCGTGGAAGTAAAGGAAGTGGAGAGAAAAACCGCAAAAGAGAACTAAAAGAAGTGTTTGGAGATGAGATGGAAGGGGTGAAGGATGTAGTCAGTGTGGAATCAGCAGTAAAAAAGAAAAGGGTGCCCCGCTTTGAGGAGGTGGAAGAACCAGTTGTTTTACCTGGTCCCCCGACTGAGAGTCCTGGCATGCTCACTAAGATTCAGATAAAGCAAATGATGGAAGCAGCCACACGACAGATTGAGGAGAGAAAGAAACAGCTAAGTTTTGCGGCTCCTACCCCCTCTTCGCAGTCAAGATTAAGTGCTTCTCAGACAGACTCTAGTACTCCACGATCTATGAACCAAGCAGGGGGTGCAACCCAGTCCATCGCTCCTTCTCAGGCTGCTAATTTCATGAATGATGCTATAGAAAAAGCACGCAAGGCAGCAGAGCTGCAGGCCAAGATCCAATCTACACTGTCCATGAAACCAGGAATTCTGGCTACTGTGGGAAACCCTGGACCACATAATATGGTAGCACTGGCCAACCTACACGCCATGGGCATTGCACCACCTAAAGTCGAACCTCGCGAGATCACAAAGCCAACACCTCTCATTTTGGATGAGCTCGGACGAACTGTTGATGCCAGTGGGAAAGAAATTGAGCTCACACATCGTATGCCCACTCTCAAAGCAAACATCAGAGCTGTGAAGAGGGAACAGTTTCGACAACAGTTAAAAGAAAAGCCTAGCGATGACCTAGAATCCACATCCTACTTTGACCCACGTGTGGCCCTTGCCCCTGCACTAAAACCCAAAAAAGGCTTTAGGTTCCATGAACAGGGGCGCTTTGAGAAGATAGCCCAGCGCATACGCACCAAAGCTCAGCTGGAAAAATTACAAATGGAGATTGCTCAGGCTGCCAAAAAGACTGGAATACAGGCCTCCACTAAACTGGCTCTTATTGCCCCAAAGAAGGAGCTGGGAGAGGGGGAGATTCCTAATATAGAGTGGTGGGACTCCTACATACTGCCCTTCCATATAAACCTatctgcACATACAAATTTAGATGAGGTGGAAATGCATGGAGTCACCAACCTAGTTGAACATCCAACTCAGATGGCTCCACCAGTGGATACCGACAAGCCAGTTACTCTTGGTGTGTATTTAACTAAGAAAGAACAGAAGAAGTTGAGGAGACAAACTCGCAGAGAAGGCCAGAAAGAGGTGCAGGAAAAAGTCAGATTAGGCCTTATGCCTCCACCTGAACCCAAAGTGCGGATCTCCAATCTGATGAGGGTTTTGGGCACAGAAGCTGTGCAGGACCCCACTAAAGTGGAGGCCCATGTTAGAGCACAAATGGCAAAGAGGCAGAAGGCACATGAGGAGGCAAATGCAGCACGCAAACTCACAGCAGAACAAAGGAAAGAGAAGAAGGTGAAAAAACTGAAGGAGGATTTGAGTCATGGAGTTCATATTGCTGTTTACAGAATCCGAAATCTGCATAACCCAGCCAAGAAGTTTAAAGTGGAGGCCAATGCAAACCAGCTGTACCTCACTGGCACTGTGGTACTGCATAAAGATGTCAACATCGTAGTTGTGGAAGGAGGACCCAAAGCACAGAAGAAGTTTAAGCGATTGATGCTGACTCGGATCAAATGGGATGAGCCAAATTCCAAAAGAGATGagcaTCACGATGACGATGAATCCAGGAGGAATAATAGATGCTCATTGGTCTGGGAGGGTACATCAAAAGAACGTAACTATGGGGAGGTTAAGTTTAAGCAGTGTCCAACGGAGAACATGGCTCGGGAACATTTTAAGAAGCATGGCACCGAGCACTACTGGGACTTGGCTCTGAGCCAAAGTGTTCTGGAGACAACTGATGACTGAGATATGGACAGAACTCAGAACAACAACTCACAGTGGAGTCCATGACAatttgcagagttttttttttttttttaagggagagagagagagtgagtgatgGATTAGACCGGCAGAGAGAAGCGCATGTAAATATCTATAGTTTGAGTGAATAAGAGAATAATTGTGCTTTGTGTACAGACAGTACAGGTGTGAAACAATGCAAGGCTTTGTTACAAGAGCTGGTGTCACGAACAAGGATGTTAATCCTAATTACTAGGGTGGACACTTGTTTTGTTTCTCTTGTAATCGTTTTATAGTGTAGGCTGTGCATTTTTTTGATTTTCTGTACCTGTGATACATCTTGACTGCTCCTTATGGTACATTGATTTGATCTTTTCAGTTAGTAAAACTCAATACTGAAACAAAA
>TCONS_00020539
CTCTCATTTTGGATGAGCTCGGACGAACTGTTGATGCCAGTGGGAAAGAAATTGAGCTCACACATCGTATGCCCACTCTCAAAGCAAACATCAGAGCTGTGAAGAGGGAACAGTTTCGACAACAGTTAAAAGAAAAGCCTAGCGATGACCTAGAATCCACATCCTACTTTGACCCACGTGTGGCCCTTGCCCCTGCACTAAAACCCAAAAAAGGCTTTAGGTTCCATGAACAGGGGCGCTTTGAGAAGATAGCCCAGCGCATACGCACCAAAGCTCAGCTGGAAAAATTACAAATGGAGATTGCTCAGGCTGCCAAAAAGACTGGAATACAGGCCTCCACTAAACTGGCTCTTATTGCCCCAAAGAAGGAGCTGGGAGAGGGGGAGATTCCTAATATAGAGTGGTGGGACTCCTACATACTGCCCTTCCATATAAACCTGTAAGAGCCAACAGTTTGTAATCTGCTCTAGACTGGTATTAAATGTACTTGACAAATTCAGAAAAAAGGTTTTGAGAGAATGGTTTTAATACAGTAACAAAATGATTGTATTGCAATTAGGGTTGAGTTAACTAGAGTTGGAATTGCGATTTTAAAATGTTGCAAATTTAATCACAAAAAACTGAAATGTGACAGTGCAATGGAGTGACGTCGTCTCCTTAGTCAGAGTGATcatataaactcttttttttaatcatataaagatttaatttatcatttagagtttaatttttttaggtgATTGCTAACCAAATCAATTAGCTGATGATTTGCTTATTCTTAAAATCATATAATCAAAACTA
>TCONS_00020540
ttttgttttgtttgttttcttcctAGATTTTTCTCCAGGATGTCACTGCCTAAACGTGAGGTTGATGAACTGAGGCCATGGGTGGAACGCACAGTAAAGAAGGTCCTTGGCTTCTCTGAACCCACTGTGGTCACAGCAGCATTGCATTGTGTGGGAAAAGGCTTAGACAAAAGAAAAACCATAGatcagctAAGACCATTTCTTGATGATTCGGCAAGCAGTTTCGTTGAGCGTCTGTTTGAAGCTCTCGAGGAAAGCAGAAACTCTCGTGGAAGTAAAGGAAGTGGAGAGAAAAACCGCAAAAGAGAACTAAAAGAAGTGTTTGGAGATGAGATGGAAGGGGTGAAGGATGTAGTCAGTGTGGAATCAGCAGTAAAAAAGAAAAGGGTGCCCCGCTTTGAGGAGGTGGAAGAACCAGTTGTTTTACCTGGTCCCCCGACTGAGAGTCCTGGCATGCTCA

Function

symbol description
prpf3 Acts upstream of or within retina development in camera-type eye. Predicted to be located in nucleus. Predicted to be part of U4/U6 x U5 tri-snRNP complex. Human ortholog(s) of this gene implicated in retinitis pigmentosa and retinitis pigmentosa 18. Orthologous to human PRPF3 (pre-mRNA processing factor 3).

GO:

id name namespace
GO:0006397 mRNA processing biological_process
GO:0000398 mRNA splicing, via spliceosome biological_process
GO:0060041 retina development in camera-type eye biological_process
GO:0046540 U4/U6 x U5 tri-snRNP complex cellular_component

KEGG:

id description
ko03040 Spliceosome
ko03041 Spliceosome

ZFIN:

id description
ZDB-GENE-040823-3 Acts upstream of or within retina development in camera-type eye. Predicted to be located in nucleus. Predicted to be part of U4/U6 x U5 tri-snRNP complex. Human ortholog(s) of this gene implicated in retinitis pigmentosa and retinitis pigmentosa 18. Orthologous to human PRPF3 (pre-mRNA processing factor 3).

Ensembl:

ensembl_id ENSDARG00000086425

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00020538 False 2705 mRNA 0.45 17 9433738 9453591
TCONS_00020539 False 801 lncRNA 0.39 3 9441021 9442003
TCONS_00020540 True 460 mRNA 0.46 3 9446920 9449712

Neighbor

gene id symbol gene type direction distance location
XLOC_010456 ccr8.1 coding downstream 8287 9421002 ~ 9425451 (-)
XLOC_010454 adcy2a coding downstream 50109 9275689 ~ 9383629 (-)
XLOC_010455 CR394537.1 coding downstream 131544 9302079 ~ 9302194 (-)
XLOC_010453 triob coding downstream 506313 8751815 ~ 8927425 (-)
XLOC_010452 NA coding downstream 754276 8668981 ~ 8679462 (-)
XLOC_010458 FO704756.1 coding upstream 110912 9564503 ~ 9566371 (-)
XLOC_010459 mal2 coding upstream 218535 9672126 ~ 9675982 (-)
XLOC_010460 COLEC10 coding upstream 227317 9680908 ~ 9694822 (-)
XLOC_010461 NA coding upstream 305585 9759176 ~ 9761753 (-)
XLOC_010462 tapbpl coding upstream 333792 9787383 ~ 9802998 (-)
XLOC_010626 CR392024.2 misc upstream 11441521 20895112 ~ 20895175 (-)
XLOC_010450 CU062417.1 non-coding downstream 954729 8478880 ~ 8479009 (-)
XLOC_010447 CR478208.1 non-coding downstream 1145291 8287771 ~ 8288447 (-)
XLOC_010444 NA non-coding downstream 1291426 8140712 ~ 8142312 (-)
XLOC_010466 NA non-coding upstream 559394 10012985 ~ 10013605 (-)
XLOC_010472 NA non-coding upstream 967579 10421170 ~ 10429893 (-)
XLOC_010473 NA non-coding upstream 972156 10425747 ~ 10428540 (-)

Expression


Co-expression Network