XLOC_018518 (prpf39)


Basic Information

Item Value
gene id XLOC_018518
gene name prpf39
gene type coding
species zebrafish (Danio rerio)
category of species model fish

Chromosome Information

Item Value
chromosome id NC_007131.7
NCBI id CM002904.2
chromosome length 55201332
location 54213688 ~ 54245256 (-)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00036346
ATGGAAGATTCCGGTGAGTCAATGACCGGGATGTTGGACTCGAAATCCCCGGAAAGCGGGGACTCTCCTGCTATGGAGGGCACAACGGGGACTGATGATGTCACAGGCTTGAGCACGTCCGATTTGACGACAGAACAACCCCCAGAAAGCCAGGAGCAGACCCAGCCGGTGTCCGACATGGAGTTTTCGGTGGAGCATTTAAAGACTGCGGTACAGAACATTGACCAAAGTGCCAGTCCTGCAGAACCTGCTGCGGAAAACTCTGAGCAGCCGCCAGAGTCAAACGGACAGCAAGAGGACCAATCAGAACAGCCGGATGATGTGAAGGAGGCGGGACAAGGTGACTCTGAGAGTCCCTCCAATATGGAGCTGGAGGACGCGCCGAAAGAGCCAGCCGAACCCGCAGCAGAAGCAGATCCAGCGGCGCCACAAGAACCAGAACTTCCCACAGAATATGAGCGTTTGTCCAAGGTTGTGGAAGATAATCCTGAAGACTTCAATGGCTGGGTTTACCTCCTGCAGTATGTTGAACAAGAGaaccACCTTCTTGGCTCAAGAAAAGCATTCGATGCATTTTTCCTGCACTATCCCTACTGTTACGGCTACTGGAAGAAATATGCAGATATCGAGAGGAAACACGGCTACATTCAGATGGCCGATGAGGTGTACCGTCGAGGTCTGCAGGCCATTCCTCTGAGCGTCGACCTGTGGCTTCATTACATCACTTTCCTAAGAGAGAATCAAGACACCAGCGATGGAGAGGCTGAGAGTCGCATCAGGGCGTCCTATGAGCATGCAGTTCTGGCCTGCGGGACAGATTTCCGCTCGGACCGTCTGTGGGAGGCTTATATCGCATGGGAGACGGAGCAAGGGAAGCTGGCCAATGTCACCGCCATCTACGACCGTCTGCTCTGCATTCCCACACAGCTGTACTCGCAGCATTTCCAGAAGTTTAAAGACCACGTGCAGAGCAACAACCCCAAGCACTTCCTGTCAGAAGAGGAGTTCGTGTCGTTGCGAGTGGAGCTGGCGAATGCAAATAAACCCAGCGGAGACGAGGACGCAGAGACTGAAGCTCCTGGGGAAGAACTGCCGCCAGGCACCGAGGACCTGCCAGACCCTGCTAAGAGAGTGACGGAGATCGAGAACATGCGGCACAAAGTGATCGAGACGCGCCAGGAGATGTTCAACCACAACGAGCACGAAGTCAGCAAACGCTGGGCCTTCGAGGAGGGGATCAAGCGTCCGTATTTCCACGTCAAAGCGCTGGAGAAGACGCAGCTGAACAACTGGCGGGAGTACCTGGATTTTGAGCTGGAGAACGGGACGCCGGAGCGGGTAGTGGTGCTGTTCGAGCGCTGTCTGATCGCCTGCGCGCTCTACGAGGAGTTCTGGATCAAGTACGCCAAGTATCTGGAGAGCTACAGCACTGAAGCTGTTCGCCACATCTACAAGAAGGCCTGCACCGTCCACCTGCCCAAAAAACCCAACGTTCACCTGCTCTGGGCCGCCTTTGAGGAGCAGCAGGgcagcATCGATGAGGCACGCAGCATCCTGAAGGCGGTGGAGGTTTCAGTGCCGGGTCTGGCGATGGTTCGCCTGCGGCGGGTCAGTCTGGAGCGCCGGCACGGGAACATGGAGGAGGCGGAAGCTCTGCTGCAGGACGCCATCACCAACGGGAGGAACAGCAGCGAGTCCTCCTTCTACAGCGTCAAACTTGCCCGACAGCTAGTCAAAGTGCAGAAGAGCATCGGCAGGGCCAAGAAGGTGCTGCTGGAGGCTGTGGAGAAAGATGAGACGAACCCGAAGCTGTACCTGAATCTGCTGGAGCTGGAGTACAGCGGAGACGTGCAGCAGAACGAAGCTGAAATCATCGCCTGTTTCGACCGCGCGCTCAGCAGCTCCATGGCTCTGGAGTCACGCATCACTTTCTCTCAACGAAAGGTGGACTTTCTGGAGGACTTCGGCAGCGACATCAACACGCTGATGGCAGCGTATGAGCAGCACCAGAGGCTACTGGCGGAGCAGGAGTCCTTCAAGAGGAAAGCAGAGAACGGctcagAGGAGCCGGATGCGAAGCGTCAGCGCACAGATGATCAATCCGTAGCATCCGGTCAGATGATGGACATGCAGGCCAATCATGCGGGATACAACTATAACAACTGGTATCAgTATAACTCGTGGGGCTCTCAGAACTCCTGGGGTCAGTACGGTCAGTATGGTCAGTATAACCAGTACTACCCTCCGCCGCCCACATAACAGCCCAGCCTCGGCTTCAGCTTCAGACATTGTGTGTTTTCTGTTCTCCGCGCCTCCCTCAGTGAGTCTTTTAGTGCTAAAGGAGTTTAGTTTTGTTCGTCTGGAAGGATTGGAGCTCCTCGCCTCCTCCTCAAACTCACCTTCATTTCAGAGTAACATCAAGACGCTTTTTTATTTTGACTGGGTTTCATAATAAAGAGATTGACATCCTACACTGCTGTCTGTGTGTTATTGTCTTTAATTGTGTGAACACGCTCAGGTCAAACTGACCCGCCTTCACTAAAGCTCTAACATAAAGCAGAAGCGTTTAGTTTCAGTGCTCAGATCCATTCTGCATGAAGAAACAAGCtgatcttcacacacacacacacacacactgtgagtGTTGTATTGTTTCCTCATCAGTGTGCAGTATATCAGCAGTGTTCACTCAGTGGACAACACTCGACTCTCACTGCAGAACTACAGACGGATGTTAAGATGAAGCAGATTCTGTCTGTGTGTTGGAGTGTTTCTAACATTGAGGTCATTTTAGACGGTCACCAGATCTCAGAACAGCTGAGTTTATTTTCCTGCTGTTGAAATGGTGCCTGGGTGATTTTCAGCAGtgtgatgacatcatctgattaatattcagtcATCAGCCGTCACTGTAAAAAGGGGAAACGTAAGCAAATTACTCTGACTGGTCACAATTAAATGAATAACgtttgtcaaacttaatttaTAACCGTTTTCAGTAATGCATTTTGGTATTtaaggcaggggttcccaaacttttcagcccgcgagccccaaaataacaatgccagcgACTCacaacccccaatatcctctgaggtggttataaatactgaagccttgcatgcaatggcgcgcgcacacccacacacaccaatagacccaagtctactCTTTATTTACTTCTTTAATGTATgcgagtgctgtaaatgggccaggaAGTAACCTGCTGTTatgaaatcaatctgctgcatctgacgccattgctgtgtctttaatataatgtaactaccccaggggtcgcaatccaatacaACTATTTACtgtaagctactatagtaactatatagcaAACAGTGACTATAAACGGTTATGGATGAAATATGCTAACTCtcatggtttaataaaaataattagatttttggaaatgaCCAGGTGACGTCCTCCCCCTTCAttagagaggggtctggctgcagactcggtgcagtgcaatctgagctgcatcaaaTGCTATTCAATGCGCtcacctacccctcacagtgacgtcactccattgagtgcattgtgtctgacaatgcatcgctgagtgatgcaacctcagcttgcatcataaaggctgcagcCAGATGCTATTGTTTCATTGTCCTCACTTTGAGAACCGCTGCTTTAGGGTTATCAGGTTTATTTGCGGCGAGTATAAGTATTGTTCACTGTCAATAATGAGCAATACTTTTATTTGCCTACAAAGAAAgtgatatttttatataaacaagGGAAGGGAATTATTAGTACTGTAA
>TCONS_00036524
CTCTGCCTCTTTCCTTTTTCTCTCTGCTTTTCTCTTCTccttctctctctatctctctcctgCTTGTTTTCTATAGTACGCCAAGTATCTGGAGAGCTACAGCACTGAAGCTGTTCGCCACATCTACAAGAAGGCCTGCACCGTCCACCTGCCCAAAAAACCCAACGTTCACCTGCTCTGGGCCGCCTTTGAGGAGCAGCAGGgcagcATCGATGAGGCACGCAGCATCCTGAAGGCGGTGGAGGTTTCAGTGCCGGGTCTGGCGATGGTTCGCCTGCGGCGGGTCAGTCTGGAGCGCCGGCACGGGAACATGGAGGAGGCGGAAGCTCTGCTGCAGGACGCCATCACCAACGGGAGGAACAGCAGCGAGTCCTCCTTCTACAGCGTCAAACTTGCCCGACAGCTAGTCAAAGTGCAGAAGAGCATCGGCAGGGCCAAGAAGGTGCTGCTGGAGGCTGTGGAGAAAGATGAGACGAACCCGAAGCTGTACCTGAATCTGCTGGAGCTGGAGTACAGCGGAGACGTGCAGCAGAACGAAGCTGAAATCATCGCCTGTTTCGACCGCGCGCTCAGCAGCTCCATGGCTCTGGAGTCACGCATCACTTTCTCTCAACGAAAGGTGGACTTTCTGGAGGACTTCGGCAGCGACATCAACACGCTGATGGCAGCGTATGAGCAGCACCAG
>TCONS_00037020
aaccACCTTCTTGGCTCAAGAAAAGCATTCGATGCATTTTTCCTGCACTATCCCTACTGTTACGGCTACTGGAAGAAATATGCAGATATCGAGAGGAAACACGGCTACATTCAGATGGCCGATGAGGTGTACCGTCGAGGTCTGCAGGCCATTCCTCTGAGCGTCGACCTGTGGCTTCATTACATCACTTTCCTAAGAGAGAATCAAGACACCAGCGATGGAGAGGCTGAGAGTCGCATCAGGGCGTCCTATGAGCATGCAGTTCTGGCCTGCGGGACAGATTTCCGCTCGGACCGTCTGTGGGAGGCTTATATCGCATGGGAGACGGAGCAAGGGAAGCTGGCCAATGTCACCGCCATCTACGACCGTCTGCTCTGCATTCCCACACAGCTGTACTCGCAGCATTTCCAGAAGTTTAAAGACCACGTGCAGAGCAACAACCCCAAGCACTTCCTGTCAGAAGAGGAGTTCGTGTCGTTGCGAGTGGAGCTGGCGAATGCAAATAAACCCAGCGGAGACGAGGACGCAGAGACTGAAGCTCCTGGGGAAGAACTGCCGCCAGGCACCGAGGACCTGCCAGACCCTGCTAAGCCAATGAAAACCTGAGGGTCCAGGTTGGCATCCAATCAGGGGCTAAAAGCGGGACGGGGGTCTCGTGACGAAATGGCACCGCCCCTCCCAGCACCCACCGCCGCAGCCGATTCACTGGAGAGTGACGGAGATCGAGAACATGCGGCACAAAGTGATCGAGACGCGCCAGGAGATGTTCAACCACAACGAGCACGAAGTCAGCAAACGCTGGGCCTTCGAGGAGGGGATCAAGCGTCCGTATTTCCACGTCAAAGCGCTGGAGAAGACGCAGCTGAACAACTGGCGGGAGTACCTGGATTTTGAGCTGGAGAACGGGACGCCGGAGCGGGTAGTGGTGCTGTTCGAGCGCTGTCTGATCGCCTGCGCGCTCTACGAGGAGTTCTGGATCAAGGGGATGGCCTGCTTGCCACACAAGATTTGACTGCAGCATTTGCCAACTACGTTGCACCTCTCCGTCTCCTTCTACCTTACAGAATCTTATCTTATTGGTTCCATGAAGTACGCCAAGTATCTGGAGAGCTACAGCACTGAAGCTGTTCGCCACATCTACAAGAAGGCCTGCACCGTCCACCTGCCCAAAAAACCCAACGTTCACCTGCTCTGGGCCGCCTTTGAGGAGCAGCAGGgcagcATCGATGAGGCACGCAGCATCCTGAAGGCGGTGGAGGTTTCAGTGCCGGGTCTGGCGATGGTTCGCCTGCGGCGGGTCAGTCTGGAGCGCCGGCACGGGAACATGGAGGAGGCGGAAGCTCTGCTGCAGGACGCCATCACCAACGGGAGGAACAGCAGCGAGTCCTCCTTCTACAGCGTCAAACTTGCCCGACAGCTAGTCAAAGTGCAGAAGAGCATCGGCAGGGCCAAGAAGGTGCTGCTGGAGGCTGTGGAGAAAGATGAGACGAACCCGAAGCTGTACCTGAATCTGCTGGAGCTGGAGTACAGCGGAGACGTGCAGCAGAACGAAGCTGAAATCATCGCCTGTTTCGACCGCGCGCTCAGCAGCTCCATGGCTCTGGAGTCACGCATCACTTTCTCTCAACGAAAGGTGGACTTTCTGGAGGACTTCGGCAGCGACATCAACACGCTGATGGCAGCGTATGAGCAGCACCAG
>TCONS_00036525
GGCACCGCCCCTCCCAGCACCCACCGCCGCAGCCGATTCACTGGAGAGTGACGGAGATCGAGAACATGCGGCACAAAGTGATCGAGACGCGCCAGGAGATGTTCAACCACAACGAGCACGAAGTCAGCAAACGCTGGGCCTTCGAGGAGGGGATCAAGCGTCCGTATTTCCACGTCAAAGCGCTGGAGAAGACGCAGCTGAACAACTGGCGGGAGTACCTGGATTTTGAGCTGGAGAACGGGACGCCGGAGCGGGTAGTGGTGCTGTTCGAGCGCTGTCTGATCGCCTGCGCGCTCTACGAGGAGTTCTGGATCAAGGGGATGGCCTGCTTGCCACACAAGATTTGACTGCAGCATTTGCCAACTACGTTGCACCTCTCCGTCTCCTTCTACCTTACAGAATCTTATCTTATTGGTTCCATGAAGTACGCCAAGTATCTGGAGAGCTACAGCACTGAAGCTGTTCGCCACATCTACAAGAAGGCCTGCACCGTCCACCTGCCCAAAAAACCCAACGTTCACCTGCTCTGGGCCGCCTTTGAGGAGCAGCAGGgcagcATCGATGAGGCACGCAGCATCCTGAAGGCGGTGGAGGTTTCAGTGCCGGGTCTGGCGATGGTTCGCCTGCGGCGGGTCAGTCTGGAGCGCCGGCACGGGAACATGGAGGAGGCGGAAGCTCTGCTGCAGGACGCCATCACCAACGGGAGGAACAGCAGCGAGTCCTCCTTCTACAGCGTCAAACTTGCCCGACAGCTAGTCAAAGTGCAGAAGAGCATCGGCAGGGCCAAGAAGGTGCTGCTGGAGGCTGTGGAGAAAGATGAGACGAACCCGAAGCTGTACCTGAATCTGCTGGAGCTGGAGTACAGCGGAGACGTGCAGCAGAACGAAGCTGAA
>TCONS_00036526
AGCACTTCCTGTCAGAAGAGGAGTTCGTGTCGTTGCGAGTGGAGCTGGCGAATGCAAATAAACCCAGCGGAGACGAGGACGCAGAGACTGAAGCTCCTGGGGAAGAACTGCCGCCAGGCACCGAGGACCTGCCAGACCCTGCTAAGCCAATGAAAACCTGAGGGTCCAGGTTGGCATCCAATCAGGGGCTAAAAGCGGGACGGGGGTCTCGTGACGAAATGGCACCGCCCCTCCCAGCACCCACCGCCGCAGCCGATTCACTGGAGAGTGACGGAGATCGAGAACATGCGGCACAAAGTGATCGAGACGCGCCAGGAGATGTTCAACCACAACGAGCACGAAGTCAGCAAACGCTGGGCCTTCGAGGAGGGGATCAAGCGTCCGTATTTCCACGTCAAAGCGCTGGAGAAGACGCAGCTGAACAACTGGCGGGAGTACCTGGATTTTGAGCTGGAGAACGGGACGCCGGAGCGGGTAGTGGTGCTGTTCGAGCGCTGTCTGATCGCCTGCGCGCTCTACGAGGAGTTCTGGATCAAGGTAAATCCGCTTTTCTGTCGCCGCGCGCCCTCCGCCATGCCCTCTGTCCACCCTATGCTTCCCCATCAACGAATTCATCACTTCCACAGTAAAACTTGCTGCACTCTTTGCGTGTAACGTTGATATTTGACTGTATCTGTTATATTAGGGGATGGCCTGCTTGCCACACAAGATTTGACTGCAGCATTTGCCAACTACGTTGCACCTCTCCGTCTCCTTCTACCTTACAGAATCTTATCTTATTGGTTCCATGAAGGTGCTGATGGGTTTAACACAGAAATTCTCAAAACGATCTTGTCAATGGAAATTCAGCAGTGGCGAGGATGTGAAATGAAGGTTCAA
>TCONS_00036527
TCGCATGGGAGACGGAGCAAGGGAAGCTGGCCAATGTCACCGCCATCTACGACCGTCTGCTCTGCATTCCCACACAGCTGTACTCGCAGCATTTCCAGAAGTTTAAAGACCACGTGCAGAGCAACAACCCCAAGCACTTCCTGTCAGAAGAGGAGTTCGTGTCGTTGCGAGTGGAGCTGGCGAATGCAAATAAACCCAGCGGAGACGAGGACGCAGAGACTGAAGCTCCTGGGGAAGAACTGCCGCCAGGCACCGAGGACCTGCCAGACCCTGCTAAGCCAATGAAAACCTGAGGGTCCAGGTTGGCATCCAATCAGGGGCTAAAAGCGGGACGGGGGTCTCGTGACGAAATGGCACCGCCCCTCCCAGCACCCACCGCCGCAGCCGATTCACTGGAGAGTGACGGAGATCGAGAACATGCGGCACAAAGTGATCGAGACGCGCCAGGAGATGTTCAACCACAACGAGCACGAAGTCAGCAAACGCTGGGCCTTCGAGGAGGGGATCAAGCGTCCGTATTTCCACGTCAAAGCGCTGGAGAAGACGCAGCTGAACAACTGGCGGGAGTACCTGGATTTTGAGCTGGAGAACGGGACGCCGGAGCGGGTAGTGGTGCTGTTCGAGCGCTGTCTGATCGCCTGCG
>TCONS_00036528
aaccACCTTCTTGGCTCAAGAAAAGCATTCGATGCATTTTTCCTGCACTATCCCTACTGTTACGGCTACTGGAAGAAATATGCAGATATCGAGAGGAAACACGGCTACATTCAGATGGCCGATGAGGTGTACCGTCGAGGTCTGCAGGCCATTCCTCTGAGCGTCGACCTGTGGCTTCATTACATCACTTTCCTAAGAGAGAATCAAGACACCAGCGATGGAGAGGCTGAGAGTCGCATCAGGGCGTCCTATGAGCATGCAGTTCTGGCCTGCGGGACAGATTTCCGCTCGGACCGTCTGTGGGAGGCTTATATCGCATGGGAGACGGAGCAAGGGAAGCTGGCCAATGTCACCGCCATCTACGACCGTCTGCTCTGCATTCCCACACAGCTGTACTCGCAGCATTTCCAGAAGTTTAAAGACCACGTGCAGAGCAACAACCCCAAGCACTTCCTGTCAGAAGAGGAGTTCGTGTCGTTGCGAGTGGAGCTGGCGAATGCAAATAAACCCAGCGGAGACGAGGACGCAGAGACTGAAGCTCCTGGGGAAGAACTGCCGCCAGGCACCGAGGACCTGCCAGACCCTGCTAAGCCAATGAAAACCTGAGGGTCCAGGTTGGCATCCAATCAGGGGCTAAAAGCGGGACGGGGGTCTCGTGACGAAATGGCACCGCCCCTCCCAGCACCCACCGCCGCAGCCGATTCACTGGGTGTGCAAACCGTACTGTTTCTGTCAAACTCATGGTGACGTAGACCTTTTGCGTAGCTGGACATCAGACGAGATAACATGTTTGCGCTGCGCCGTTGAAGACGATGCTCAGGAATGTGTATTTCGCCCTCTAGAGAGTGACGGAGATCGAGAACATGCGGCACAAAGTGATCGAGACGCGCCAGGAGATGTTCAACCACAACGAGCACGAAGTCAGCAAACGCTGGGCCTTCGAGGAGGGGATCAAGCGTC

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).

GO:

id name namespace
GO:0006396 RNA processing biological_process
GO:0006397 mRNA processing biological_process
GO:0000395 mRNA 5'-splice site recognition biological_process
GO:0008380 RNA splicing biological_process
GO:0005634 nucleus cellular_component
GO:0005685 U1 snRNP cellular_component
GO:0000243 commitment complex cellular_component
GO:0071004 U2-type prespliceosome cellular_component

KEGG:

id description
ko03041 Spliceosome

ZFIN:

id description
ZDB-GENE-030616-420 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).

Ensembl:

ensembl_id ENSDARG00000100209

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00036346 False 3797 mRNA 0.50 14 54213688 54245256
TCONS_00036524 False 685 lncRNA 0.57 4 54219268 54228114
TCONS_00037020 False 1699 lncRNA 0.57 12 54219268 54236432
TCONS_00036525 False 893 lncRNA 0.58 7 54220049 54232434
TCONS_00036526 False 879 lncRNA 0.54 4 54228179 54232770
TCONS_00036527 False 643 lncRNA 0.59 5 54228547 54233154
TCONS_00036528 True 960 lncRNA 0.55 6 54228676 54236432

Neighbor

gene id symbol gene type direction distance location
XLOC_018517 faua coding downstream 5344 54201459 ~ 54208344 (-)
XLOC_018516 arf6a coding downstream 15558 54196543 ~ 54198130 (-)
XLOC_018515 CABZ01111496.1 coding downstream 21558 54174978 ~ 54192130 (-)
XLOC_018514 NA coding downstream 40389 54164885 ~ 54173299 (-)
XLOC_018513 NA coding downstream 59485 54149197 ~ 54154203 (-)
XLOC_018519 fkbp3 coding upstream 4083 54249339 ~ 54259780 (-)
XLOC_018520 NA coding upstream 25635 54270891 ~ 54271455 (-)
XLOC_018521 NA coding upstream 94455 54339711 ~ 54345412 (-)
XLOC_018522 entpd5b coding upstream 115012 54360268 ~ 54381034 (-)
XLOC_018523 yy1b coding upstream 174336 54419592 ~ 54435287 (-)
XLOC_017928 CU539064.1 misc downstream 44159987 10053405 ~ 10053701 (-)
XLOC_018511 NA non-coding downstream 162194 54050432 ~ 54051494 (-)
XLOC_018510 NA non-coding downstream 166955 54046178 ~ 54046733 (-)
XLOC_018505 NA non-coding downstream 403019 53804362 ~ 53810669 (-)
XLOC_018525 NA non-coding upstream 238509 54483765 ~ 54488224 (-)
XLOC_018529 NA non-coding upstream 341383 54586639 ~ 54610803 (-)
XLOC_018530 NA non-coding upstream 517265 54762521 ~ 54772668 (-)

Expression


Co-expression Network