XLOC_015424 (rpp40)


Basic Information

Item Value
gene id XLOC_015424
gene name rpp40
gene type coding
species zebrafish (Danio rerio)
category of species model fish

Chromosome Information

Item Value
chromosome id NC_007113.7
NCBI id CM002886.2
chromosome length 59640629
location 23613040 ~ 23620223 (+)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00030861
GCTGCTCGAGTTCTGCTGACAGCAGGAACTGACGTCAAACCTTTGCGACAGGCGAAGTTGCCACTATTTTGAAACATTAAACAGGCGCGCCGATGCAGTTTAGTGTAATAAACTCGTTTCTTTATTTCGCTGCTTGATGTAACAACAATGTAAGTATTTTGTACAGATATTAAAATGTCGCCAGAGCTGGAAAAGTGCCCGAGAAACCTGCTGGTGTGCGAGAAATCAAACTTCTTGAATGAAAAGTCTCGGCATGACATCCACGTGTCGAAGCACAGCTTTAACTACAAGACCTCAGTGCTGATTCCTGAATGCGGGATCCTGCCTGCTAACATCAGCAGTGCCTTCAGCAGCTTCAGCCCTTATTATTTAGTGCGGGACCTGCCTGtatatgaactgctggaagaaacATTTCTGGAGTCGCTCGTGAAGAAAGGACATTTCTATGCACTCTCTTACAACACCAAAATTGATGAAGATAATTCCATTGCACTTCTTTCCAGTGGTCAgttcattttgtctttaaataaaGACACGTACGAGCAACTTGGCTTGGAGGGCCGACCATCCCAGTATAATCACAGAAAGGCTCTGAGATTTGTTGTGACTCTTGACCTCACGGATAAAAGCTTGGCTCCAGGCACCAAACGATACCAGCGGGTTCTGTCATCTTTAAAAGACAGACTTCCACTCAAATATGACTTTCTTTTCACCAAGTACAACACAGGTTCTGATGAAGACGAAGTTCTTCATGCGCTGCTGTCCCGTTACACATACAAGGAGCACAAGCCTGTTTTCAGCCAGCACATCCTGAAAAATATTCAGTGTCCCACACTTTACCCATCGGATATACAAGGAAAGACGCTGTCATGTGACCCACATCGTTTCTTGGAGTGGCTTGGAGCAGTTAATCTGGATATTAATTGTGAAAATGCAGCTGACAGTTTCCTGTCTACATATGTGTGTCCCGAGCCTCAGAGCTCCATCAGTCAGGCTGTGGTGTGCAGCGTCACTGGCTTCATCTCACCTGAGAATGTGTTTGTGCTGCTGCAGGAGCTCAGGAAGTATTTCGATGAACCGAAGTTCACACCATGGCTTTCCCTCACAGTGCATGGGTTTATGGACAGTCCTGTGTCGTGGGGAACCTCAGAGCACGGCTTCCTCAAAGGTGGTGAAAACTTCTACAATTTTGTTTGTTTCAAGAATCAGGACTACTGGCTACACATGGCCACCGGTGCTCAAGATGCCTGTCCACCTTGAAACGATGGGCTTTGTGTTCAATTGTACaatataaaagttattttattaaaattcatttaagaggaccaaagtaaaataaaatagtatatcAA
>TCONS_00030862
TTTTGAAACATTAAACAGGCGCGCCGATGCAGTTTAGTGTAATAAACTCGTTTCTTTATTTCGCTGCTTGATGTAACAACAATGTAAGTATTTTGTACAGATATTAAAATGTCGCCAGAGCTGGAAAAGTGCCCGAGAAACCTGCTGGTGTGCGAGAAATCAAACTTCTTGAATGAAAAGTCTCGGCATGACATCCACGTGTCGAAGCACAGCTTTAACTACAAGACCTCAGTGCTGATTCCTGAATGCGGGATCCTGCCTGCTAACATCAGCAGTGCCTTCAGCAGCTTCAGCCCTTATTATTTAGTGCGGGACCTGCCTGtatatgaactgctggaagaaacATTTCTGGAGTCGCTCGTGAAGAAAGGACATTTCTATGCACTCTCTTACAACACCAAAATTGATGAAGATAATTCCATTGCACTTCTTTCCAGTGGTCAgttcattttgtctttaaataaaGACACGTACGAGCAACTTGGCTTGGAGGGCCGACCATCCCAGTATAATCACAGAAAGGCTCTGAGATTTGTTGTGACTCTTGACCTCACGGATAAAAGCTTGGCTCCAGGCACCAAACGATACCAGCGGGTTCTGTCATCTTTAAAAGACAGACTTCCACTCAAATATGACTTTCTTTTCACCAAGTACAACACAGGTTTGTAGGGAATGCATTATTACCATCACTGGCTTTTGTGATGGATTTTTCATTTGCGTTTGCTGTTTGTATTCTAAACCTTATCAGGTTCTGATGAAGACGAAGTTCTTCATGCGCTGCTGTCCCGTTACACATACAAGGAGCACAAGCCTGTTTTCAGCCAGCACATCCTGAAAAATATTCAGTGTCCCACACTTTACCCATCGGATATACAAGGAAAGACGCTGTCATGTGACCCACATCGTTTCTTGGAGTGGCTTGGAGCAGTTAATCTGGATATTAATTGTGAAAATGCAGCTGACAGTTTCCTGTCTACATATGTGTGTCCCGAGCCTCAGAGCTCCATCAGTCAGGCTGTGGTGTGCAGCGTCACTGGCTTCATCTCACCTGAGAATGTGTTTGTGCTGCTGCAGGAGCTCAGGAAGTATTTCGATGAACCGAAGTTCACACCATGGCTTTCCCTCACAGTGCATGGGTTTATGGACAGTCCTGTGTCGTGGGGAACCTCAGAGCACGGCTTCCTCAAAGGTGGTGAAAACTTCTACAATTTTGTTTGTTTCAAGAATCAGGACTACTGGCTACACATGGCCACCGGTGCTCAAGATGCCTGTCCACCTTGAAACGATGGGCTTTGTGTTCAATTGTACaatataaaagttattttattaaaattcatttaagaggaccaaagtaaaataaaatagtatatcAATTTA

Function

symbol description
rpp40 Predicted to contribute to ribonuclease MRP activity and ribonuclease P activity. Predicted to be involved in endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA); endonucleolytic cleavage involved in tRNA processing; and tRNA 5'-leader removal. Predicted to be part of multimeric ribonuclease P complex and ribonuclease MRP complex. Orthologous to human RPP40 (ribonuclease P/MRP subunit p40).

GO:

id name namespace
GO:1905267 endonucleolytic cleavage involved in tRNA processing biological_process
GO:0000447 endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) biological_process
GO:0001682 tRNA 5'-leader removal biological_process
GO:0030681 multimeric ribonuclease P complex cellular_component
GO:0000172 ribonuclease MRP complex cellular_component
GO:0004526 ribonuclease P activity molecular_function
GO:0000171 ribonuclease MRP activity molecular_function

KEGG:

id description
ko03008 Ribosome biogenesis in eukaryotes
ko03009 Ribosome biogenesis
ko03016 Transfer RNA biogenesis
ko03029 Mitochondrial biogenesis

ZFIN:

id description
ZDB-GENE-040625-161 Predicted to contribute to ribonuclease MRP activity and ribonuclease P activity. Predicted to be involved in endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA); endonucleolytic cleavage involved in tRNA processing; and tRNA 5'-leader removal. Predicted to be part of multimeric ribonuclease P complex and ribonuclease MRP complex. Orthologous to human RPP40 (ribonuclease P/MRP subunit p40).

Ensembl:

ensembl_id ENSDARG00000017605

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00030861 False 1352 mRNA 0.44 8 23613040 23620219
TCONS_00030862 True 1377 lncRNA 0.43 7 23613106 23620223

Neighbor

gene id symbol gene type direction distance location
XLOC_015422 NA coding upstream 3764 23541727 ~ 23609276 (+)
XLOC_015423 NA coding upstream 55525 23550186 ~ 23557515 (+)
XLOC_015421 BX470197.1 coding upstream 128692 23482798 ~ 23484348 (+)
XLOC_015418 NA coding upstream 133794 23406453 ~ 23479246 (+)
XLOC_015420 NA coding upstream 161639 23450772 ~ 23451401 (+)
XLOC_015425 oxsr1a coding downstream 56956 23677179 ~ 23726605 (+)
XLOC_015426 BX649335.1 coding downstream 59650 23679873 ~ 23679989 (+)
XLOC_015427 slc22a13a coding downstream 110971 23731194 ~ 23745290 (+)
XLOC_015428 NA coding downstream 152695 23772918 ~ 23779429 (+)
XLOC_015429 csrnp1a coding downstream 170525 23790748 ~ 23805139 (+)
XLOC_015419 NA non-coding upstream 191993 23414883 ~ 23421047 (+)
XLOC_015432 NA non-coding downstream 316312 23936535 ~ 23940330 (+)
XLOC_015433 CR788285.2 non-coding downstream 393027 24013250 ~ 24014943 (+)
XLOC_015434 NA non-coding downstream 402575 24022798 ~ 24024448 (+)

Expression


Co-expression Network