RNA id: LOC117597139


Basic Information

Item Value
RNA id LOC117597139
length 366
RNA type V_segment
GC content 0.43
exon number 3
gene id LOC117597139
representative True

Chromosome Information

Item Value
chromosome id NC_047598.1
NCBI id CM018544.1
chromosome length 33267568
location 32810432 ~ 32811735 (-)
genome version GENO_Phyp_1.0_2019_striped_catfish_Genome
species striped catfish
(Pangasianodon hypophthalmus)

Sequence

atgttcactgttatattcatgtgtctgtggctttcactaggtgactccatggcagattcaatacagccactttcccctcgtgtagttgtagatgaaggtgttaatgttactctgtcctgcaactACACAACCAGTTATACAAGCCCCTACCTGcactggtacagacaatatccaaaatctaaacctaaGTTCCTTCTCTACATCACTGGAAGTGGACTTAAAAGTGACCCTATTTCACCACATCTGTCTGCTAAAgttgatgataaaaataaacgagtggatctgctcatctcctctgctgctgtatcagactctgcactatactactgtgctGATCCTGCAGCTGATCCAGTTGAGCTGGAATGA

Function

GO:

id name namespace
GO:0030163 protein catabolic process biological_process
GO:1901565 organonitrogen compound catabolic process biological_process
GO:0009057 macromolecule catabolic process biological_process
GO:0044257 cellular protein catabolic process biological_process
GO:0044265 cellular macromolecule catabolic process biological_process
GO:0051603 proteolysis involved in cellular protein catabolic process biological_process
GO:0046980 tapasin binding molecular_function

KEGG:

id description
ko04612 Antigen processing and presentation
ko05168 Herpes simplex virus 1 infection
ko05320 Autoimmune thyroid disease
ko05330 Allograft rejection
ko05332 Graft-versus-host disease
ko05416 Viral myocarditis
ko04940 Type I diabetes mellitus

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
XR_004577920.1 lncRNA downstream 41150 32767588 ~ 32769282 (-) True LOC117596968
TU88464 lncRNA downstream 150471 32659532 ~ 32659961 (-) True G74647
TU88463 lncRNA downstream 158191 32651787 ~ 32652241 (-) True G74646
XR_004577912.1 lncRNA downstream 162334 32647281 ~ 32648098 (-) True LOC117596962
TU88457 lncRNA downstream 182436 32627561 ~ 32627996 (-) True G74640
XR_004577919.1 lncRNA upstream 38192 32849927 ~ 32851375 (-) True LOC117596967
TU88526 lncRNA upstream 50472 32862207 ~ 32862659 (-) True G74702
XR_004577918.1 lncRNA upstream 60011 32871746 ~ 32873023 (-) True LOC117596966
XR_004578073.1 lncRNA upstream 134399 32946134 ~ 32947158 (-) True LOC117597171
TU88542 lncRNA upstream 213686 33025421 ~ 33025846 (-) True G74717
XM_026935889.2 mRNA downstream 1082880 31710064 ~ 31727552 (-) True nmnat2
XM_034303857.1 mRNA downstream 1265798 31538539 ~ 31544634 (-) True LOC113540064
XM_026936953.2 mRNA downstream 1277174 31528370 ~ 31533258 (-) True psmb5
XM_034304039.1 mRNA downstream 1340791 31379473 ~ 31469641 (-) False LOC113540461
XM_034303863.1 mRNA upstream 11823 32823558 ~ 32825567 (-) True LOC117597140
XM_034303864.1 mRNA upstream 161050 32972785 ~ 32977700 (-) True LOC117597141
XM_026912180.2 mRNA upstream 319352 33131087 ~ 33135775 (-) False c4h14orf119
XM_026912181.2 mRNA upstream 319352 33131087 ~ 33135467 (-) False c4h14orf119
XM_026912179.2 mRNA upstream 319352 33131087 ~ 33134319 (-) True c4h14orf119
LOC117596923 other downstream 136 32809596 ~ 32810296 (-) True LOC117596923
LOC117596938 other downstream 6210 32803554 ~ 32804222 (-) True LOC117596938
LOC117596927 other downstream 32634 32776966 ~ 32777798 (-) True LOC117596927
TU88466 other downstream 145012 32664898 ~ 32665420 (-) False LOC117596929
TU88467 other downstream 147956 32661983 ~ 32662476 (-) False LOC117596929
LOC113540133 other upstream 3694 32815429 ~ 32816281 (-) True LOC113540133
LOC117596924 other upstream 23304 32835039 ~ 32835722 (-) True LOC117596924
LOC117596934 other upstream 32366 32844101 ~ 32845270 (-) True LOC117596934
TU88527 other upstream 54211 32865946 ~ 32866461 (-) True G74703
TU88528 other upstream 54211 32865946 ~ 32868466 (-) False G74703

Expression Profile