rtca (rtca,LOC107653637,LOC107715104,LOC107669846)


Basic Information

Item Value
gene id rtca
gene name rtca,LOC107653637,LOC107715104,LOC107669846
gene type coding
species striped catfish (Pangasianodon hypophthalmus)
category of species economic fish

Chromosome Information

Item Value
chromosome id NC_047605.1
NCBI id CM018551.1
chromosome length 26640196
location 12497851 ~ 12507903 (+)
genome version GENO_Phyp_1.0_2019_striped_catfish_Genome

Sequence

>XM_026930321.2
CTTCCTCGCAGTTCGTCTGAGCTTGCCATTTATGCGCATGCGCAGTCACTGTCTAGCAGTTTGCGTGTGACTGGCGATACTAGTTGCGGGCAGTTAGCTAGTCAGCTAATCTACATCCGTATCAGTAAAAttgaatgaacattttatttcagttgagatcattttttgtttactttaaagTAAGTGCTAGTTAGCACAGTTTTGTGTACTGCAGCTTTGTTATAGGCCCTGTTTTGCTCGGGCGCAGTGAGTGTCGGGAAGTTTGGCGGTTTTATCCTCCGCATTGTTTGGGAACCGGCATATATTAGCCTGTAGCTAAGCTAACTTTAGCCGTTGTCTGAGTTGAGAGAAGCTCGGTTTTCTAGCGGCTCGCTGTGGTTAGCGCATCTCCTGTTATCAGGAGTTGTTTGTTGTTATACACTGAAGTCGGCGGAAGAAAAAATTCGTAGTATTCGCTGGATTTCTTCAAAAATGGCCGCAACGGCGCTCGAGATGGACGGAAGTGTGATGGAAGGGGGAGGACAGATCCTGAGGGTCTCAGCTGCTCTCAGCTGTATTCAAGGCGCTTCTCTGAAAATCAACAAAATCCGCGCAGGAAGGAGCACCCCGGGCTTAAGGCCTCAGCATCTGTCAGGCTTGGAGCTGCTGAGGGACATGTGTGATGGGAATCTGGAGGGAGCCACTGTGGGATCCTCTGAGATCACATTGACTGCTGGGAAGATCAAGTGCGGGAATTACATCGCAGATACACAGACTGCTGGGAGTGTTGGGCTTCTGCTGCAGATCTCGCTGCCCTGTGCGCTGTTTGCTGAGGGACCTTCAGAGCTCTGCCTGAAAGGAGGAACCAATGCCGAGATGGCTCCACAGATCGATTACACACTCAAGgTGTTCAAACCCATTGCGGAGAGATTTGGCGTACAGTTTGACTGTGATTTAAGGATGAGAGGTTATTACCCCAAGGGCGGTGGAGAAGTGGTGGTAAAGGTGAACCCTGTGAAAGAGCTGAGTCCCATCAACATGACTGAGAGAGGGAACATCACAAAGATCTACGGCCGGGCCTTTGTGGCTGGAGTGCTGCCTTTCAAGCTGGCGAAGGACATGTCTGCTGCAGCTGTGCGCACCATCCGAAAAGAGATAAAAGATCTTTACATCAACATACAGTCTCTGCAAGAGAAGGACAAGGCCTGTGGAAATGGGAATGGCATCATAATCATCGCAGAGTCCTCTACCGGCTGTATTTTTGCTGGTTCATCTCTTGGAAAGAAAGGTGTTTATGCAGATAAAGTTGGCATCGAGGCAGCTGAGATGCTCCTGAGGAACATCAGGCACAACGGCTGCGTGGACGAGTTTTTGCAAGACCAgCTGATTATCTTCATGGCCTTGGCTAAGGGCACGTCCCGGATGCGCACCGGACCGatcactctacacacacagactgccaTCCATGTGGCGGAGCAGCTCACTAAGGCCAAGTTTGCGATACGCAGAGCAGATGATGAACATGCCAATAATGACACCTACATCATTGAGTGCCAGGGCGTGGGCGCCACCAACTCCAACCTGTGAGCTTGCCTTCGGAGTGCCAGTGGAGGCCGCTGGAGATCACGTAGCAGAAACACACTACTGTAACCAAGCGGATGGCGCGAAGACGTTGTCATCTCGGCATTCCTCTTCGCGCTTCCGCACGGAACGGTTGCCTCATTAGTCCTTGCGCTGACCCTGAGTCGGTCTGCTTTGTCCACgctttttataataatctcccATTTCTCAAATGACTTTTGTTACTCAGGGTATTGCCTTACACTGTAACTGAGCGTCGTGTGTCCTaggagctctttttttttttttttttattttgcattaatgaTTAGTTGGTTAGAATCTTCAGTATTTAACCAGATGGCTTTTCTTTTTGATCCACTTTCCACTTTTGTGTGCTAAACACGAGCCTTAAAGAAACCGCAATTTCACAGTCGCAATCAGAACACGGTTCAAATCCTGATCATGTGCATGGAACTAGGAATAAGTATGTCACCAGTAATTATAGTGCACTGTGTGTACATGGAGCTAAACAAAATGGTCTGCTGTCCCTGAACAAAAAAACTGAGTTTATGTAGCTGCTTTGtccttttttgtaaattatttaagttGATGTATTGAATGAATGACACCATgtcaccatgtttttttttttttttttttttttttttttcctcccctcttttctctttacattttcatttgaagctcactCTTTAGCTTTATTAGGTTTGTGAGGTGGTGGGCTGGGTGGAATCCCTTAAAAAATGATGGTCAGTTTTTTCATTTGTAGTGCTTACTACATTATTTATGAGAAGGGATTATATGTGGTGATGTTTGCCttcttcttttactttttttttttttgcttcactgTAGGTGACAATGACCcctgtttatttactttaagatatttttgaaagagaaaagatCACAATAAAATCGTTAAGAATATAGTTGTTTAAAATGAA

Function

symbol description
rtca Predicted to enable RNA-3'-phosphate cyclase activity. Predicted to act upstream of or within RNA processing. Predicted to be active in nucleus. Is expressed in several structures, including axis; lateral plate mesoderm; nervous system; neural plate; and primordial germ cell. Orthologous to human RTCA (RNA 3'-terminal phosphate cyclase).

NR:

description
PREDICTED: RNA 3'-terminal phosphate cyclase

GO:

id name namespace
GO:0006396 RNA processing biological_process
GO:0005524 ATP binding molecular_function
GO:0003963 RNA-3'-phosphate cyclase activity molecular_function

KEGG:

id description
K01974 RTCA, rtcA; RNA 3'-terminal phosphate cyclase (ATP)

RNA

RNA id representative length rna type GC content exon number start site end site
XM_026930321.2 True 2510 mRNA 0.45 11 12497851 12507903

Neighbor

gene id symbol gene type direction distance location
LOC113536408 LOC108271398 coding upstream 10242 12484123 ~ 12487609 (+)
trmt13 trmt13 coding upstream 18082 12473933 ~ 12479769 (+)
trnag-ucc_15 NA coding upstream 109610 12388170 ~ 12388241 (+)
sass6 sass6,LOC107756018 coding upstream 128074 12355995 ~ 12369777 (+)
arhgef18b arhgef18 coding upstream 196941 12239232 ~ 12300910 (+)
LOC117598419 gpr88 coding downstream 57315 12565218 ~ 12566601 (+)
LOC113536666 gpr88 coding downstream 79570 12587473 ~ 12590364 (+)
LOC117598432 NA coding downstream 94428 12602331 ~ 12605805 (+)
vcam1b vcam1 coding downstream 107171 12615074 ~ 12623948 (+)
slc30a7 slc30a7,LOC107588064 coding downstream 137283 12645186 ~ 12666010 (+)
G180246 NA non-coding upstream 200 12496731 ~ 12497651 (+)
G180242 NA non-coding upstream 11107 12486506 ~ 12486744 (+)
G180205 NA non-coding upstream 74699 12422702 ~ 12423152 (+)
G180192 NA non-coding upstream 104360 12392887 ~ 12393491 (+)
G180144 NA non-coding upstream 310881 12181015 ~ 12186970 (+)
G180267 NA non-coding downstream 145893 12653796 ~ 12654215 (+)
G180268 NA non-coding downstream 146519 12654422 ~ 12682563 (+)
G180516 NA non-coding downstream 328965 12836868 ~ 12841282 (+)
G180534 NA non-coding downstream 343057 12850960 ~ 12851179 (+)
G180695 NA non-coding downstream 628234 13136137 ~ 13203148 (+)
timm13 timm13,LOC107731338,LOC106573564,LOC107593051 other upstream 164170 12328052 ~ 12333681 (+)
G180121 NA other upstream 442102 12054958 ~ 12055749 (+)
G179758 psmd1 other upstream 1066954 11428613 ~ 11430897 (+)
G179643 NA other upstream 1336254 11160346 ~ 11161597 (+)
G179632 NA other upstream 1399040 11096153 ~ 11098811 (+)
cdc14ab cdc14a other downstream 4985 12512888 ~ 12561781 (+)
LOC117598398 NA other downstream 65254 12573157 ~ 12602064 (+)
ankmy1 ankmy1 other downstream 588470 13096373 ~ 13111706 (+)
aqp12 LOC108271384,LOC108424976 other downstream 728574 13236477 ~ 13239637 (+)
trnag-gcc_9 NA other downstream 742467 13250370 ~ 13250441 (+)

Expression


Co-expression Network