prpf4 (prpf4,LOC107721635,LOC107691731,LOC107743802,LOC107663789)


Basic Information

Item Value
gene id prpf4
gene name prpf4,LOC107721635,LOC107691731,LOC107743802,LOC107663789
gene type coding
species tiger barb (Puntius tetrazona)
category of species ornamental fish

Chromosome Information

Item Value
chromosome id NC_056703.1
NCBI id CM032072.1
chromosome length 32833783
location 23616176 ~ 23621160 (-)
genome version ASM1883169v1_2021_tiger_barb_Genome

Sequence

>XM_043239377.1
aaacattttgtgtggaAAACCACGTCGAGTTACAGCGGTCCGCCGTGCTTCGGCCGCTGGGGGTCGCTGTAGTTCTTGCTCAAGAGCACTACAGGCGGATGTGACGACATACTGCGCGCCGGACAGCCCGCGTCGTGCGCTCGTGTTTGTAGATAATACACATTAGGTTTCATACAAACAACCTGTTTAAGTGAAGCTGTTTGTGAGATAGAGATAAtcggttgttgttgttggacaAATAGCTGCAAAGATGTCGGATGAAGACGAAGTTCCGGTTGTGAAAAAGGCCAGGATCTTCTATGGAAGCCttgaagaaaaggaaaaggagcGTCTCAGCCGTGAAGGATTGTCTACTGCTTCCAGAGATGCCGTTAAAGCTGGCATTGAGGCTGGACATATTAATATCTCCAGTGGTGAGTCCATGGAGCTGGAGGAGCGTGTGAGTGAGCGACAGGCTGAGGTGCTGGCAGAGTTTGAGCGGAGGAAGCGAGCGAGACAGATCACGGTCTCCACTGACGACGTGGAGGTCAAGGCCTGCCTCCGAGCTCTTGGCGAGCCAATCACGCTATTTGGGGAGGGGCCTGCGGAGAGACGAGAGAGATTGAGGAACATTCTCTCAGTAGTTGGTCCTGATGCTTTGAAGAAATCAAAGAAAGAGGATGACAGAGCAAAACGGAGTCAAGATGAGTATCAGCAGACCTGGTACCATGAAGGACCTTCGTCTCTGAAAGAGGCCCGTGTTTGGTTAGCCAAGTATTCACTACCCAGAGCAGTGCAAAGGTTGGATGCTGCACGGGCACATAAAGAAATTCCAGAGTCTACGAGAACAGTTAAACAGCAAGAGCTTCACAAGACCCTACGGaACGTGAATAACTTCTGCAGCCAAATTGGTGATGACCGTCCAATATCTCACTGTCAGTTCAGCCCCAACTCTAAGCTGCTTGTGACTGCGTCATGGAGTGGCTTGTGTAAATTGTGGAAAGTCCCAGACTGCACACTTGTACGCACATTAAGAGGTCACAATACCAATGTGGGAGCGATTAGCTTTCACCCTCAGGCCACGCTCACACTCGAGGAGTCCGATGTCAATATGGCCTCCTGTGCTGTGGATGGATCCGTTAAGCTGTGGAGTTTAGACAGTGATGAGCCTGTAGCAGACATTGAGGGGCACTCTATGAGGGTGGCTCGAGTGGCCTGGCATCCCTCTGGACGCTTTCTGGGAACAACTTGCTATGATAACTCATGGCGACTTTGGGATCTTGAAGCCCAAGAAGAAATTCTGCATCAGGAGGGTCATAGTAAAGGGGTCCATGACCTGCACTTCCACCCAGATGGCTCTCTGGCAGGAACTGGTGGTTTGGATTCGTTTGCTCGTGTGTGGGACCTGCGGACGGGTCGTTGTATCATGTTCCTGGAAGGCCACCACAAAGAGATTTATAGCATCAATTTTTCACCAAACGGTTTTAATGTGGCAACAGGAAGTGGAGATAACACCTGTAAAGTGTGGGACCTTCGTCATAGAAGGTGCCTGTACACCATTCCTGCCCATGAGAACCTTGTGTCTTCAGTCAAGTTCCAACCTAACGATGGGCACTTTTTGCTGACTGGTGCATATGACAACACAGCCAAAGTGTGGACCCATCCTGGCTGGTCACCTCTAAAGACTCTGGCGGGTCACGAAGGCAAGGTTATGGGGCTTGACCTTTCACCTGATGGACAGCTCATTGCCACCTGCTCTTATGACCGGACCTTCAAACTCTGGATGGCGGAATGATATTCTGTTTGTGTTGAtgcgttttcattttttatttttattttattttacttacatttttaagctTAGTTTTAAAGCgcatgaaaacaacaaatggGATCTTTAAATTAGAAGGCGATGGACAGTTAAAACAGGAAATGCAATCAAATGTTCCCCTCGGTCTGAATTGTTGTAACAAGCAACTCTTATTCTAGTGGATCGTCTTAAGATCTGAAATCCGATCCGTCTGTTCATGAATTGTCTCTCATGTCCATGTTTTCTATTGACCGCTGTGTTTTGCAGAATTTGACATATTACTGTTCCACTGGGTatccaaataaaatatattttattgtccCAGGCAAAAGGAA
>XM_043239378.1
aaacattttgtgtggaAAACCACGTCGAGTTACAGCGGTCCGCCGTGCTTCGGCCGCTGGGGGTCGCTGTAGTTCTTGCTCAAGAGCACTACAGGCGGATGTGACGACATACTGCGCGCCGGACAGCCCGCGTCGTGCGCTCGTGTTTGTAGATAATACACATTAGGTTTCATACAAACAACCTGTTTAAGTGAAGCTGTTTGTGAGATAGAGCTGCAAAGATGTCGGATGAAGACGAAGTTCCGGTTGTGAAAAAGGCCAGGATCTTCTATGGAAGCCttgaagaaaaggaaaaggagcGTCTCAGCCGTGAAGGATTGTCTACTGCTTCCAGAGATGCCGTTAAAGCTGGCATTGAGGCTGGACATATTAATATCTCCAGTGGTGAGTCCATGGAGCTGGAGGAGCGTGTGAGTGAGCGACAGGCTGAGGTGCTGGCAGAGTTTGAGCGGAGGAAGCGAGCGAGACAGATCACGGTCTCCACTGACGACGTGGAGGTCAAGGCCTGCCTCCGAGCTCTTGGCGAGCCAATCACGCTATTTGGGGAGGGGCCTGCGGAGAGACGAGAGAGATTGAGGAACATTCTCTCAGTAGTTGGTCCTGATGCTTTGAAGAAATCAAAGAAAGAGGATGACAGAGCAAAACGGAGTCAAGATGAGTATCAGCAGACCTGGTACCATGAAGGACCTTCGTCTCTGAAAGAGGCCCGTGTTTGGTTAGCCAAGTATTCACTACCCAGAGCAGTGCAAAGGTTGGATGCTGCACGGGCACATAAAGAAATTCCAGAGTCTACGAGAACAGTTAAACAGCAAGAGCTTCACAAGACCCTACGGaACGTGAATAACTTCTGCAGCCAAATTGGTGATGACCGTCCAATATCTCACTGTCAGTTCAGCCCCAACTCTAAGCTGCTTGTGACTGCGTCATGGAGTGGCTTGTGTAAATTGTGGAAAGTCCCAGACTGCACACTTGTACGCACATTAAGAGGTCACAATACCAATGTGGGAGCGATTAGCTTTCACCCTCAGGCCACGCTCACACTCGAGGAGTCCGATGTCAATATGGCCTCCTGTGCTGTGGATGGATCCGTTAAGCTGTGGAGTTTAGACAGTGATGAGCCTGTAGCAGACATTGAGGGGCACTCTATGAGGGTGGCTCGAGTGGCCTGGCATCCCTCTGGACGCTTTCTGGGAACAACTTGCTATGATAACTCATGGCGACTTTGGGATCTTGAAGCCCAAGAAGAAATTCTGCATCAGGAGGGTCATAGTAAAGGGGTCCATGACCTGCACTTCCACCCAGATGGCTCTCTGGCAGGAACTGGTGGTTTGGATTCGTTTGCTCGTGTGTGGGACCTGCGGACGGGTCGTTGTATCATGTTCCTGGAAGGCCACCACAAAGAGATTTATAGCATCAATTTTTCACCAAACGGTTTTAATGTGGCAACAGGAAGTGGAGATAACACCTGTAAAGTGTGGGACCTTCGTCATAGAAGGTGCCTGTACACCATTCCTGCCCATGAGAACCTTGTGTCTTCAGTCAAGTTCCAACCTAACGATGGGCACTTTTTGCTGACTGGTGCATATGACAACACAGCCAAAGTGTGGACCCATCCTGGCTGGTCACCTCTAAAGACTCTGGCGGGTCACGAAGGCAAGGTTATGGGGCTTGACCTTTCACCTGATGGACAGCTCATTGCCACCTGCTCTTATGACCGGACCTTCAAACTCTGGATGGCGGAATGATATTCTGTTTGTGTTGAtgcgttttcattttttatttttattttattttacttacatttttaagctTAGTTTTAAAGCgcatgaaaacaacaaatggGATCTTTAAATTAGAAGGCGATGGACAGTTAAAACAGGAAATGCAATCAAATGTTCCCCTCGGTCTGAATTGTTGTAACAAGCAACTCTTATTCTAGTGGATCGTCTTAAGATCTGAAATCCGATCCGTCTGTTCATGAATTGTCTCTCATGTCCATGTTTTCTATTGACCGCTGTGTTTTGCAGAATTTGACATATTACTGTTCCACTGGGTatccaaataaaatatattttattgtccCAGGCAAAAGGAA

Function

symbol description
prpf4 Predicted to enable U4 snRNA binding activity and U6 snRNA binding activity. Acts upstream of or within chordate embryonic development; mRNA splicing, via spliceosome; and sensory system development. Predicted to be located in nuclear speck. Predicted to be part of U4/U6 x U5 tri-snRNP complex. Is expressed in brain; eye; posterior lateral line primordium; and spinal cord. Used to study retinitis pigmentosa. Human ortholog(s) of this gene implicated in retinitis pigmentosa 70. Orthologous to human PRPF4 (pre-mRNA processing factor 4).

NR:

description
U4/U6 small nuclear ribonucleoprotein Prp4

GO:

id name namespace
GO:0060041 retina development in camera-type eye biological_process
GO:0008380 RNA splicing biological_process
GO:0019013 viral nucleocapsid cellular_component

KEGG:

id description
K12662 PRPF4, PRP4; U4/U6 small nuclear ribonucleoprotein PRP4

RNA

RNA id representative length rna type GC content exon number start site end site
XM_043239377.1 True 2124 mRNA 0.48 14 23616176 23621160
XM_043239378.1 False 2095 mRNA 0.48 14 23616176 23621160

Neighbor

gene id symbol gene type direction distance location
cryabb cryab,LOC107574702,LOC107603201,LOC107663778,LOC107691740,LOC107721632 coding downstream 53425 23559354 ~ 23562751 (-)
bicdl2 zgc:153929,LOC107574699,LOC107743809,LOC107691738,LOC107663774,LOC107603196 coding downstream 61689 23548715 ~ 23554487 (-)
ufc1 ufc1,LOC107574697,LOC107691797,LOC107603203,LOC107663780 coding downstream 87922 23526578 ~ 23528254 (-)
fdxacb1 fdxacb1,si:dkey-71l1.3,LOC107745124,LOC107574693 coding downstream 92426 23519260 ~ 23523750 (-)
alg9 alg9,LOC107691744,LOC107745128 coding downstream 98028 23510178 ~ 23518148 (-)
slc31a1 slc31a1 coding upstream 2340 23623500 ~ 23632691 (-)
atp6v1g1 atp6v1g1,LOC107709788,LOC107566902,LOC108259956 coding upstream 12521 23633681 ~ 23636168 (-)
pja2 LOC107691728,LOC107721647,LOC107709785,LOC107663782,LOC107603188,LOC107564050 coding upstream 50127 23671287 ~ 23684780 (-)
tmem232 LOC107691726,LOC107751260 coding upstream 112583 23733743 ~ 23740396 (-)
lhx1b lhx1b,lhx1,LOC107728209,LOC107691793,LOC107600607,LOC107695154,LOC107730325,LOC107603180 coding upstream 370131 23991291 ~ 23996276 (-)
G38769 NA non-coding downstream 258029 23357574 ~ 23358147 (-)
G38767 NA non-coding downstream 270379 23345589 ~ 23345797 (-)
G38747 NA non-coding downstream 578706 23036457 ~ 23037470 (-)
G38658 nup88,LOC107691763,LOC107709758,LOC107600765,LOC107744326,LOC107664301 non-coding downstream 739739 22873971 ~ 22876437 (-)
G38634 NA non-coding downstream 823123 22791690 ~ 22793053 (-)
G38892 NA non-coding upstream 45681 23666841 ~ 23669869 (-)
G38982 NA non-coding upstream 281459 23902619 ~ 23902898 (-)
G39034 NA non-coding upstream 356016 23977176 ~ 23978527 (-)
G39050 NA non-coding upstream 447470 24068630 ~ 24069914 (-)
G39057 NA non-coding upstream 466720 24087880 ~ 24088812 (-)
LOC122345364 NA other downstream 10428 23602236 ~ 23605748 (-)
nrgna nrgna other downstream 484168 23127212 ~ 23132008 (-)
LOC122344823 LOC107717639,LOC107712133,LOC107685828,LOC107710712,LOC107681889,LOC107575606,LOC107587718 other downstream 1732154 21877081 ~ 21884022 (-)
akap10 akap10,LOC107595480,LOC107587677 other downstream 1790071 21809013 ~ 21826105 (-)
G38355 abr,LOC107665039,LOC107595513,LOC107712163 other downstream 1996593 21612688 ~ 21619583 (-)
G38917 LOC107691721,LOC107751254,LOC107564048,LOC107721650,LOC107603186,LOC107663788 other upstream 130720 23751880 ~ 23756588 (-)
G38973 NA other upstream 266143 23887303 ~ 23887680 (-)
aatf LOC107695156,LOC107730321,LOC107600606,LOC107603183 other upstream 358504 23979664 ~ 23997739 (-)
G39113 NA other upstream 576545 24197705 ~ 24200496 (-)
tmc2a tmc2a,tmc1,LOC107684381,LOC107596032,LOC108437175,LOC107730318,LOC108259782 other upstream 644304 24265464 ~ 24277304 (-)

Expression


Co-expression Network