XLOC_022142 (prpf6)


Basic Information

Item Value
gene id XLOC_022142
gene name prpf6
gene type coding
species zebrafish (Danio rerio)
category of species model fish

Chromosome Information

Item Value
chromosome id NC_007134.7
NCBI id CM002907.2
chromosome length 46223584
location 6998633 ~ 7052412 (-)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00043743
AAAAGAAGACTTTTATGTTGCAGGAAACGCGACAGTGTTGTTCCGGAAGTGGAGCGTGTTGTCGTCAACGCATCGATGGCGAGCTCCGCAGCGAAACAACCCCCCAAAAATGCAAGCAAAGCCCCGTCCGGAGGGGCCGGCGGGGCTGCGGCGGGAGCAGCGGCAATGCCGCTCGCTTCTCCGCTCATGGGAGGCTTGAACAAGAAAAAGAAGCCGTTTCTCGGCATGCCTGCACCGCTGGGTTACGTACCCGGTCTGGGCAGAGGTGCCACGGGTTTCACCACACGATCTGATATCGGTCCTGCTCGTGATGCCAATGACCCAGTTGATGATCGCCACGCACCTCCGGGGAAGAGGACGGTGGGTGATCAAATGAAGAAAAGCCAGGATGATGATGACGAGGATCTCAACGACACCAATTATGATGAGTTTAACGGCTATGCGGGCAGTCTGTTCTCCAGCGGGCCGTATGAGAAAGATGACGAGGAGGCCGACGCTATTTATGCTGCACTGGATAAAAGAATGGATGAGAGACGGAAAGAAAGAAGGGAGctgcgagagaaagaggagattGAGAAGTATCGTATGGAGCGGCCTAAAATTCAGCAACAGTTCTCAGACCTGAAGAGGAAGCTGTCTGAGGTCACAGAGGATGAGTGGTTGAGTATTCCTGAGGTGGGTGATGCCAGGAACAAGCGTCAGAGGAATCCGCGCTACGAGAAGCTCACACCTGTGCCAGACAGCTTCTTTGCCAAGCACCTCCAGACCGGAGAAAACCACACCTCTGTTGACCCACTGCAAGGGCAATTTGGTGGTCTGAACACACCCTTTCCAGGGGGCTTGAACACACCCTACCCAGGTGGCATGACACCCGATGCTGGAGAGCTGGACATGAGAAAGATCGGACAGGCCAGAAACACTCTGATGGACATGAGGCTCAGTCAGGTGTCTGATTCTGTGAGTGGACAGACAGTTGTTGATCCTAAAGGTTACCTCACCGATCTCAACTCCATGATCCCCACATATGGAGGGGATATCAGTGATATTAAGAAAGCTCGTCTGCTCTTGAAATCAGTGAGAGAAACAAACCCGCACCACCCACCCGCTTGGATCGCTTCTGCCCGTTTGGAAGAGGTGACTGGAAAACTGCAGGTGGCCAGAAACCTGATCATGAAAGGCACTGAGATGTGTCCCAAGAGTGAGGATGTTTGGCTAGAAGCTGCGCGTCTGCAGCCTGGAGACACAGCGAAAGCAGTAGTTGCCCAAGCAGTGCGACACCTCCCTCAGTCTGTGCGCATCTACATCAGAGCCGCTGAGCTGGAGACGGACATCAGGGCCAAGAAAAGAGTGCTCAGGAAAGCTTTAGAGAATGTGTCGAAATCTGTGCGTTTGTGGAAGACAGCTGTTGAGCTGGAGGAACCAGAGGATGCTAGGATCATGTTGAGCAGAGCAGTGGAGTGCTGTCCTACCAGTGTGGAGCTCTGGCTGGCTCTGGCTCGGTTAGAGACCTATGAGAACGCTCGCCGCGTCCTGAACAAAGCCCGTGAAAACATTCCCACCGATCGGCATATCTGGATCACCGCTGCCAAGCTGGAGGAGGCCAATGGCAACACGCAGATGGTGGAGAAGATCATCGACAGAGCCATCACCTCACTGAGGGCCAACGGCGTGGAGATCAACCGCGAACAGTGGATTCAGGATGCAGAGGAGTGTGATAAGGCTGGCAGTGTGGTCACATGTCAGTCTGTGATCAGAGCTGTGATCGGGATCGGCATTGAAGAAGAGGACTGCAAACACACATGGATGGAGGACGCAGACAGTTGTGTTTCTCATGGTGCTCTGGAGTGCGCACGTGCCATCTATGCTCATGCACTCCAGGTCTTTCCCAGCAAGAAGAGTGTCTGGCTGAGGGCGGCTTATTTTGAGAAGAACAATGGGACACGAGAGTCATTGGAGGCTCTGTTACAGAGGGCTGTAGCTCACTGTCCTAAGGCTGAGGTGTTGTGGCTGATGGGTGCTAAATCGAAATGGTTGGCTGGAGATGTTCCTGCAGCCAGAAGTATCTTGGCTCTGGCTTTCCAAGCTAACCCTAACAGTGAGGAGATCTGGCTGGCTGCCGTGAAGTTGGAATCAGAGAATAACGAGTACGAGAGAGCCCGCAGGCTGCTGGCCAAAGCCCGGAGCAGCGCCCCCACTGCCAGGgtgttTATGAAGTCGGTGAGGCTGGAGTGGGTGCTGGGTAATATTGAAGCTGCACATGAGTTATGCACAGAAGCCCTGAAGCATTATGAGGATTTCCCCAAGCTCTGGATGATGAGAGGACAGATTGAGGAACAGTCCGAGAGCATCGACAGAGCACGAGAGGCCTACAACCAAGGACTGAAGAAGTGCCCTCACTCCATGTCTTTATGGCTGCTTCTGTCTCGGCTGGAGGAGAAAGTTGGGCAGCTCACACGTGCTCGAGCCATCTTGGAAAAAGCTCGCCTCAAGAATCCACAAAGCCCTGAACTTTGGCTGGAGTCCGTCCGGCTTGAATATAGAGCGGGTTTGAAAAACATTGCAAACACACTCATGGCCAAAGCCCTTCAGGAATGTCCTAACTCTGGTATCCTCTGGTCTGAAGCAGTCTTCCTGGAGGCCAGACCTCAGCGCAAGACCAAGAGTGTCGACGCTCTGAAAAAGTGTGAACACGATCCCCATGTGCTTCTGGCAGTGGCCAAaTTGTTCTGGAGCGAAAGAAAGATAACAAAGGCGAGAGAGTGGTTCCTGCGGACAGTAAAGATTGAACCGGACTTGGGCGATGCTTGGGGTTTCTTCTATAAGTTTGAGCTTCAGCATGGGACCGAAGAGCAGCAGCATGAGGTGAAGAAGCGTTGTGAGAATGCAGAACCGCGTCACGGTGAGCTGTGGTGCGCTGAATCCAAGCACATCCTCAACTGGCAGAAGAACATCGGAGAGATCCTGGTCCTCGTGGCTTCAAAGATCAAAAACTCCTTCTAAACCGCGGGACTATTGTCAGATTCACAACTCAGGCATGTTTGGTTTAgcaaatatgttattttttaggGAATCTGTGGATGAATGTCATTGagagatttttgttttgtgttttatggcTATTTTTCCATTTTTGGAGTGGTTGTCTCCGTTGTAAAGTCTAGTTACACCCAGAGACATGAGTTCATTTTGAACATTATTGCCAGAACTATCTGCCACCTTCTTACCCTTCTTCCCATTAGGCTTGTGTAAATGTCTTACTGGTTTATCAGGAAATAAAAGTCTGATCTGTTTTGAAATAAAGTTCTGTCATGAAGCTTTATTGGGTGCACAGACTAAAAAATCCTATTTGATCTGCTTCTACCTATATGGTGCAGGTGATTGCTGTTGCCTCAGCAGCCAGTAGGCTTGCTCCTCAACATTTAAATGCTTCAATGTTGTTTGCACTAGCAATATGCAGCTCTTTATTTGATAGAATTTACATTCTGCAACAGCAGTGTGGCATATTCTCATATAGCATGTCTGTGAATATATTGGCAGTAGCAAGGCTTGGTGCTTACTCTGCACCAGTAGTTAAAGCGGTAGCAGCTGTGTATTTtgtgtatacactcaccggccactttattaggtacacctgtccaactgcacgtTAACGCTAATTTTTATTCagccgatcacatggcagcaactcaatgcatttaggcatgtggacatggtcaagacgatctgttaCAGTTCAAACTGATCATCAGaacggggaagaaaggtgatttaagtgactttgaacgttgcatggttgttgatgccagacgggctggtctgagtatttcggaaattgctgatctaccgggattttcacgcacaaccatctctagggtttacagagaatggtccgaaaaagagaaaatatccagtgagcggcagttctgtgggcacaaatgtcttgttgaggccagaggtcagaggagaatggccagactggttcaagcagaaaaacaacaataacttaaatatccacttgttacaaccgaggtctgcagaaggcatctctgaacgcacaacatgtctaaccttgaagcagataggctacagcagcagaagaccacaccattCCTGTCAGCAAAGAACAGGAAACTTAGGCTACGAttcatacaggctcaccaaaaatgtacaacagaagattggaaaaatgttacctggtttgatgagtcttgatttctgctgcgacatttagtTGGttgggtcaaaatttggcatcaacaacatgaaagcatggagccatcctgccttatattaatggttcaggctggtgatggttgaatggtgtggggatattttcttggcacactttgggcccgttagtaccatttgagcattgtttcaacgccacagcctaccttagtattgtgtctgaccatgtccatgaccacagtgtatccattgtctgatggctacttccagcaggataacgcaccatgtcatagagttcactgtactcaaatggcctccacagtcaccagatcctcaatccaatagagcaccattgggtTGTAGCGGAACAggggattcgcatcatggatgtgctgtctacaaatctgcagcaaccgcgtgatgctatcatgtcaataaggaccaaaatctctgaggaatatttccagtaccttgtcgaatctatgccacaaaggattagggcatttctgaagacaaaaaggggtccaacccggttctagtaaggggtacctaataaagtggccagtgagtgtacatgcCAGCAGGtatatacatattcattaccGTACTAGGTCTCTTTAAGAATTTTTGTATCTGTATTATTTCAAATATG
>TCONS_00043744
GGAGCGTGTTGTCGTCAACGCATCGATGGCGAGCTCCGCAGCGAAACAACCCCCCAAAAATGCAAGCAAAGCCCCGTCCGGAGGGGCCGGCGGGGCTGCGGCGGGAGCAGCGGCAATGCCGCTCGCTTCTCCGCTCATGGGAGGCTTGAACAAGAAAAAGAAGCCGTTTCTCGGCATGCCTGCACCGCTGGGTTACGTACCCGGTCTGGGCAGAGGTGCCACGGGTTTCACCACACGATCTGATATCGGTCCTGCTCGTGATGCCAATGACCCAGTTGATGATCGCCACGCACCTCCGGGGAAGAGGACGGTGGGTGATCAAATGAAGAAAAGCCAGGATGATGATGACGAGGATCTCAACGACACCAATTATGATGAGTTTAACGGCTATGCGGGCAGTCTGTTCTCCAGCGGGCCGTATGAGAAAGATGACGAGGAGGCCGACGCTATTTATGCTGCACTGGATAAAAGAATGGATGAGAGACGGAAAGAAAGAAGGGAGctgcgagagaaagaggagattGAGAAGTATCGTATGGAGCGGCCTAAAATTCAGCAACAGTTCTCAGACCTGAAGAGGAAGCTGTCTGAGGTCACAGAGGATGAGTGGTTGAGTATTCCTGAGGTGGGTGATGCCAGGAACAAGCGTCAGAGGAATCCGCGCTACGAGAAGCTCACACCTGTGCCAGACAGCTTCTTTGCCAAGCACCTCCAGACCGGAGAAAACCACACCTCTGTTGACCCACTGCAAGGGCAATTTGGTGGTCTGAACACACCCTTTCCAGGGGGCTTGAACACACCCTACCCAGGTGGCATGACACCCGATGCTGGAGAGCTGGACATGAGAAAGATCGGACAGGCCAGAAACACTCTGATGGACATGAGGCTCAGTCAGGTGTCTGATTCTGTGAGTGGACAGACAGTTGTTGATCCTAAAGGTTACCTCACCGATCTCAACTCCATGATCCCCACATATGGAGGGGATATCAGTGATATTAAGAAAGCTCGTCTGCTCTTGAAATCAGTGAGAGAAACAAACCCGCACCACCCACCCGCTTGGATCGCTTCTGCCCGTTTGGAAGAGGTGACTGGAAAACTGCAGGTGGCCAGAAACCTGATCATGAAAGGCACTGAGATGTGTCCCAAGAGTGAGGATGTTTGGCTAGAAGCTGCGCGTCTGCAGCCTGGAGACACAGCGAAAGCAGTAGTTGCCCAAGCAGTGCGACACCTCCCTCAGTCTGTGCGCATCTACATCAGAGCCGCTGAGCTGGAGACGGACATCAGGGCCAAGAAAAGAGTGCTCAGGAAAGCTTTAGAGAATGTGTCGAAATCTGTGCGTTTGTGGAAGACAGCTGTTGAGCTGGAGGAACCAGAGGATGCTAGGATCATGTTGAGCAGAGCAGTGGAGTGCTGTCCTACCAGTGTGGAGCTCTGGCTGGCTCTGGCTCGGTTAGAGACCTATGAGAACGCTCGCCGCGTCCTGAACAAAGCCCGTGAAAACATTCCCACCGATCGGCATATCTGGATCACCGCTGCCAAGCTGGAGGAGGCCAATGGCAACACGCAGATGGTGGAGAAGATCATCGACAGAGCCATCACCTCACTGAGGGCCAACGGCGTGGAGATCAACCGCGAACAGTGGATTCAGGATGCAGAGGAGTGTGATAAGGCTGGCAGTGTGGTCACATGTCAGTCTGTGATCAGAGCTGTGATCGGGATCGGCATTGAAGAAGAGGACTGCAAACACACATGGATGGAGGACGCAGACAGTTGTGTTTCTCATGGTGCTCTGGAGTGCGCACGTGCCATCTATGCTCATGCACTCCAGGTCTTTCCCAGCAAGAAGAGTGTCTGGCTGAGGGCGGCTTATTTTGAGAAGAACAATGGGACACGAGAGTCATTGGAGGCTCTGTTACAGAGGGCTGTAGCTCACTGTCCTAAGGCTGAGGTGTTGTGGCTGATGGGTGCTAAATCGAAATGGTTGGCTGGAGATGTTCCTGCAGCCAGAAGTATCTTGGCTCTGGCTTTCCAAGCTAACCCTAACAGTGAGGAGATCTGGCTGGCTGCCGTGAAGTTGGAATCAGAGAATAACGAGTACGAGAGAGCCCGCAGGCTGCTGGCCAAAGCCCGGAGCAGCGCCCCCACTGCCAGGgtgttTATGAAGTCGGTGAGGCTGGAGTGGGTGCTGGGTAATATTGAAGCTGCACATGAGTTATGCACAGAAGCCCTGAAGCATTATGAGGATTTCCCCAAGCTCTGGATGATGAGAGGACAGATTGAGGAACAGTCCGAGAGCATCGACAGAGCACGAGAGGCCTACAACCAAGGACTGAAGAAGTGCCCTCACTCCATGTCTTTATGGCTGCTTCTGTCTCGGCTGGAGGAGAAAGTTGGGCAGCTCACACGTGCTCGAGCCATCTTGGAAAAAGCTCGCCTCAAGAATCCACAAAGCCCTGAACTTTGGCTGGAGTCCGTCCGGCTTGAATATAGAGCGGGTTTGAAAAACATTGCAAACACACTCATGGCCAAAGCCCTTCAGGAATGTCCTAACTCTGGTATCCTCTGGTCTGAAGCAGTCTTCCTGGAGGCCAGACCTCAGCGCAAGACCAAGAGTGTCGACGCTCTGAAAAAGTGTGAACACGATCCCCATGTGCTTCTGGCAGTGGCCAAaTTGTTCTGGAGCGAAAGAAAGATAACAAAGGCGAGAGAGTGGTTCCTGCGGACAGTAAAGATTGAACCGGACTTGGGCGATGCTTGGGGTTTCTTCTATAAGTTTGAGCTTCAGCATGGGACCGAAGAGCAGCAGCATGAGGTGAAGAAGCGTTGTGAGAATGCAGAACCGCGTCACGGTGAGCTGTGGTGCGCTGAATCCAAGCACATCCTCAACTGGCAGAAGAACATCGGAGAGATCCTGGTCCTCGTGGCTTCAAAGATCAAAAACTCCTTCTAAACCGCGGGACTATTGTCAGATTCACAACTCAGGCATgGAATCTGTGGATGAATGTCATTGagagatttttgttttgtgttttatggcTATTTTTCCATTTTTGGAGTGGTTGTCTCCGTTGTAAAGTCTAGTTACACCCAGAGACATGAGTTCATTTTGAACATTATTGCCAGAACTATCTGCCACCTTCTTACCCTTCTTCCCATTAGGCTTGTGTAAATGTCTTACTGGTTTATCAGGAAATAAAAGTCTGATCTGTTTTG

Function

symbol description
prpf6 Predicted to be involved in spliceosomal tri-snRNP complex assembly. Predicted to act upstream of or within mRNA processing. Predicted to be located in nucleus. Predicted to be part of U4/U6 x U5 tri-snRNP complex and catalytic step 2 spliceosome. Human ortholog(s) of this gene implicated in retinitis pigmentosa 60. Orthologous to human PRPF6 (pre-mRNA processing factor 6).

GO:

id name namespace
GO:0006396 RNA processing biological_process
GO:0000398 mRNA splicing, via spliceosome biological_process
GO:0000244 spliceosomal tri-snRNP complex assembly biological_process
GO:0071013 catalytic step 2 spliceosome cellular_component
GO:0046540 U4/U6 x U5 tri-snRNP complex cellular_component

KEGG:

id description
ko03040 Spliceosome
ko03041 Spliceosome

ZFIN:

id description
ZDB-GENE-030131-2575 Predicted to be involved in spliceosomal tri-snRNP complex assembly. Predicted to act upstream of or within mRNA processing. Predicted to be located in nucleus. Predicted to be part of U4/U6 x U5 tri-snRNP complex and catalytic step 2 spliceosome. Human ortholog(s) of this gene implicated in retinitis pigmentosa 60. Orthologous to human PRPF6 (pre-mRNA processing factor 6).

Ensembl:

ensembl_id ENSDARG00000091367

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00043743 False 4840 mRNA 0.49 21 6998633 7052412
TCONS_00043744 True 3213 mRNA 0.52 22 7000180 7052362

Neighbor

gene id symbol gene type direction distance location
XLOC_022141 NA coding downstream 950 6984672 ~ 6997683 (-)
XLOC_022140 edem2 coding downstream 15647 6948941 ~ 6982986 (-)
XLOC_022139 si:ch211-117c9.2 coding downstream 78526 6882410 ~ 6920107 (-)
XLOC_022138 trim35-39 coding downstream 118902 6872473 ~ 6879731 (-)
XLOC_022137 ftr58 coding downstream 132671 6856469 ~ 6865962 (-)
XLOC_022143 slco4a1 coding upstream 14784 7067196 ~ 7125494 (-)
XLOC_022144 NA coding upstream 118454 7170866 ~ 7217574 (-)
XLOC_022145 NA coding upstream 147831 7200243 ~ 7202861 (-)
XLOC_022146 mir1-1 coding upstream 157745 7210157 ~ 7210262 (-)
XLOC_022147 NA coding upstream 257151 7309563 ~ 7323879 (-)
XLOC_022129 BX323087.2 non-coding downstream 578783 6399839 ~ 6419850 (-)
XLOC_022128 NA non-coding downstream 644454 6328231 ~ 6354179 (-)
XLOC_022127 NA non-coding downstream 673719 6313582 ~ 6324914 (-)
XLOC_022121 dre-let-7e non-coding downstream 1567116 5431418 ~ 5431517 (-)
XLOC_022148 NA non-coding upstream 367398 7419810 ~ 7428593 (-)

Expression


Co-expression Network

Homologous

species gene id symbol gene type chromosome NCBI id location
grasscarp (Ctenopharyngodon idella) G115681 NA non-coding CI01000021 null 867315 ~ 883125 (+)
bowfin (Amia calva) AMCG00008102 prpf6,LOC107673318,LOC107705744,LOC102793577 misc CM030123.1 CM030123.1 42413632 ~ 42437228 (+)
bowfin (Amia calva) G105048 NA non-coding CM030133.1 CM030133.1 14065341 ~ 14065908 (-)