RNA id: XR_003404265.2


Basic Information

Item Value
RNA id XR_003404265.2
length 2662
lncRNA type inter_gene
GC content 0.42
exon number 4
gene id LOC113542139
representative True

Chromosome Information

Item Value
chromosome id NC_047597.1
NCBI id CM018543.1
chromosome length 33776708
location 29865756 ~ 29870830 (+)
genome version GENO_Phyp_1.0_2019_striped_catfish_Genome
species striped catfish
(Pangasianodon hypophthalmus)

Sequence

TGGTGTTCTCGGTAGTTGATTAGTTTTCCTGCAGACAGCCGACAGGGGGAGCGCTAGTGCAGCTTTTCTCTCctaagagaagagaagagagaaaacatcTTCAAACTGTCTCTTACTGATCTCTTCTTTACAGACACACAGTAATTTTACTTCCTGTCAAAAAGACAACTTCCTGTAACTATTTCCTGGAAGCATGACAGAGTCGATTCCTACAAAATCAGAGTGCAGCTCGGATGAAGATAAAGCTGAGAAGCCGACTGAACGCTGCTCCTGATAGGCGAGTAGCCCTTTCTTCTTTGAATCACAGTGGAACCAGATAGTACAGAATAGACATTTTCTCATTAAtgcgtgctttatcctggtcagggatgcGGTATATCCGGATTCTATCCCGAGAAAGAACGGGAACGCACCCCGGATGAgacaccagttcatcacaggacaccatgcacacgcACATTCACGCCTAAGGGCAATGCAGCCAATTCACCTACCGGCATGGTTTTGGGAGACCTTACTGTTCACACTGACAGTAATTTCAGAGGGCTCATTTATTAGTTTAGTCATAGTCAGaggtaattaatttttttaatcaaatcaatTTTATGCGTGTAGCATTTTTAACAGATGTAGATTTACTTtgctaatgaacaagccagaggcgtCTGTGgggaggtaacagtaactctgcatccCTTTGGACCACATCggaccaccctgtcgttgattatgttcctataacagcatgcccccaagagTTTTCTTCATTACGAAGCAGACAGAAATTTGTGACTACATAGTATCCAGAACAGAGAGAGCACCCCAAAtgatcaatattttattttatttatttatctttttttgagGAGTACCATGAGCGAGGGAAACGCAGCTTAACAGCACTGACTCAACGCCCGGATTTTGAAAAATGCAAAAGTATGTGGGGAACACTGGGTTGAGCTTTGTTTTCAGATAAAGACAGAAGAAAGGTGGGCTTTGATCTGTGAAATCTCATATCTTTGGGCTTGTGTTGCCAAAAGACGCTCTGAAGCTCAATCAGACGACCTGCATGGGAATTCCCTCCTGATAAAATGCACATGAAAccatgcaaaaacacacacttctcattcatgcatttatttatattcttatacacaCTTATTCTTTCTTATAGAGACACTCAAGCACATACTGCTGTGGAATAATTCCTTTTGAAAGTAACTCTATAGCTTATCAGATCCTGGTTGCTTTGAGGCAGTGGGTGTGGGTGAATGCCTACACGTAAAATTTTCTTCATTATACAACAAAGATCCTCTTCTCATTCACAGCTGGATGCCACACCAATGACAGCTGCTCCTGTTTACCTTTCATGCATCCATCCCACATATCCTGTTTCTTTTTGAGCCTCTCATCATTGTCCATGGTGTATTTACCAACACGGGTACGACCTTATCACTCAGACTTAGTATTTCCGATCACACAAAGTTTCTGAACTTCTGAAAGAATGATGACGCGAAAGGTTGCTTTTTCTTTGAGCTCTTTGTTTGACATTTTggttgttttcttgttttgggAAGGGGGGGCCGGAACCAGGCGAAATGTGACTGATAAAGGTCAGTCTTTAAGATTAAAAGCGAAACAAGCATCTATTTAGTGACAGGAAAGGAGAAAAGGatatattgtgttattttttatgcattttgtatttACCTCCATACATGTGTGTGATGGCTGTGTATGCAATGCTGagggtatatgtgtgtgtgtgggtatatGCACGTCTCCACACCTAAACAGACCTCACAAGTTTCATTTGTGCCGGTTCTCTGTCCAAATTGGACATTTGATTGGGCTGAGGGATATGATGTCACCACGTGGAAGTACTTTGATGGGCATGAGGGTACCAGGGGCAGCGAGGCAGGACAATGAGGCATTATACACACCACGCCATTGATTTCTATCTGCACAGGGACACCCGGGATAGTGCATCACTCCCTGATGAAAGCACCCTGCACCCTTAGCACCACCTGATTAGAACACTTCCACCACAGAACAGTGTAAACAGCCATGAATGACCTGActgcaaatgtatttttttacatgGTCATGCTggtaataaacatataataaacaCGAAAATATGGTAATAAACATTTAGTGTAAGGTTAGATTAAGATTTTACTTATAGTATGAGCATTTAAGTTTTTGGcgtctttaaaatgtaatgcaAGGGCTATTGTGCAACCCTGAAGCTAGACTGCCACCTGCTGGAGAGACTCAGTCACAGTGAACATTTAATGATGATTTACTTCTGCCTGGAGCCACCTTGACCTGAGAATCACcggctgctgctgaggatggcctcaCTTGGACAGCCTAATGACTGCACTTGCTAAAAACTATTCTTAAGTCTCTTCATTACACAGTGGAAAACATCACTTGAATTTTATAGACTTTAAGCTAAAACTCTGCTGAAATCAACAGTGACACTGATGCTTATACTGAAGATGTTTCCAACACACATAGCACTGCTTGACACTATAGTATACaattgtagaagagtaatgatttacaTTCTCACTATCCCGTGtgacccagatgaggatgagtttcctcttgagtctggttcctctcaaggtttcttcctcatgtcatctcagag

Function

GO: NA

KEGG:

id description
ko03022 Basal transcription factors
ko03440 Homologous recombination
ko03460 Fanconi anemia pathway

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TU64777 lncRNA upstream 117252 29745163 ~ 29748504 (+) False ablim1a
TU64762 lncRNA upstream 180757 29680526 ~ 29684999 (+) True G54958
TU64763 lncRNA upstream 180757 29684009 ~ 29684999 (+) False G54958
XR_003404270.2 lncRNA upstream 391455 29451896 ~ 29474301 (+) True LOC113542173
TU64518 lncRNA upstream 681301 29124493 ~ 29184455 (+) True G54725
TU64967 lncRNA downstream 268445 30139275 ~ 30139776 (+) True G55129
TU64966 lncRNA downstream 269394 30140224 ~ 30145109 (+) True G55128
TU64971 lncRNA downstream 277271 30148101 ~ 30157041 (+) True G55132
TU64977 lncRNA downstream 292525 30163355 ~ 30164706 (+) True G55138
TU64993 lncRNA downstream 356207 30227037 ~ 30231451 (+) True G55152
XM_026939467.2 mRNA upstream 35873 29791901 ~ 29829883 (+) True smoc2
XM_026939468.2 mRNA upstream 35874 29791902 ~ 29829882 (+) False smoc2
XM_026939426.2 mRNA upstream 117251 29712339 ~ 29748505 (+) True ablim1a
XM_026939443.2 mRNA upstream 117251 29712344 ~ 29748505 (+) False ablim1a
XM_034303133.1 mRNA upstream 118275 29712337 ~ 29747481 (+) False ablim1a
XM_026939038.2 mRNA downstream 37891 29908721 ~ 29925935 (+) True vsir
XM_026939222.2 mRNA downstream 241476 30112306 ~ 30116143 (+) True zmp:0000000634
XM_034302625.1 mRNA downstream 251186 30122016 ~ 30139085 (+) False zbtb8os
XM_026939223.2 mRNA downstream 251732 30122562 ~ 30139085 (+) False zbtb8os
XM_026939224.2 mRNA downstream 251875 30122705 ~ 30139085 (+) True zbtb8os
XR_004577899.1 other upstream 118409 29712258 ~ 29747347 (+) False ablim1a
trnav-aac other upstream 757842 29107842 ~ 29107914 (+) True trnav-aac
trnav-cac other upstream 760240 29105444 ~ 29105516 (+) True trnav-cac
TU63410 other upstream 1417445 28447377 ~ 28448311 (+) True G53692
XR_004577886.1 other upstream 2659361 27197909 ~ 27206395 (+) False znf451
TU64923 other downstream 66718 29937548 ~ 29941181 (+) True G55091
TU65142 other downstream 483492 30354322 ~ 30358454 (+) False mgst3b
TU65162 other downstream 609102 30479932 ~ 30486287 (+) False LOC113542119
TU66180 other downstream 1914955 31785785 ~ 31796326 (+) True G56222
XR_004577804.1 other downstream 2075372 31946202 ~ 31989051 (+) False kcnh5b

Expression Profile