RNA id: TU114732


Basic Information

Item Value
RNA id TU114732
length 3692
lncRNA type inter_gene
GC content 0.38
exon number 3
gene id G96677
representative True

Chromosome Information

Item Value
chromosome id NC_047600.1
NCBI id CM018546.1
chromosome length 31307711
location 9417586 ~ 9503941 (-)
genome version GENO_Phyp_1.0_2019_striped_catfish_Genome
species striped catfish
(Pangasianodon hypophthalmus)

Sequence

TAATGCTGTGACAGTTTAATGTAAATCCAAGACAAAGTGTGATTACATTTCTACACATATACAATATGCATATGTGAGCATACAAATTCTCATTAATAACTCGATTCACCTTGGAGACcgaaaaaatgatcaaaagtAACAGTGAATAACAAGCTATAACATAGTTCACCACAATGCGAGCCCCTTCTCACCCTACAGTTAGTAAATAGAACAATTAAAATAACTATATTCTTCTATAACCCAGATGTTTGttaaaatcctccataaatttaCACTGCTATCGTTAGTTGTCGAAGCCTAATATAAATTCACTCAATTTTTCTACAACGAAAATTAAGAGAAGCACACAACATCTTAATGGTAACACAAGCGCTTAGTTAGCAAGTACTCAACTTTTTGGAGTTAAATCATTCttcttattatcattattatattcatttttaacattctaTAAAGCCAGTAAAATATCCATTCTCATAACATACTTAATAATATTAGTCTAAGGTACAGGGTACACATAGCGCTACGTTAACAGATTGAAATAATGAGACTTCACACTTCTTCAAATCCCCAATAAagaaagctaaataaaaagaagacaTTAACAAAGAAACATACTTGAAAATACTGCAGCACACAATAGCTTTGACAACAACTAATGAGATACACCATTGAGTAACCCTACAGCAATAGACACAAAAATCAGGGTCAGGGTGCGATGCTTTCTTAGGTCTTGagatattatagaaaaatattacattttacttgTTTCTTGTTGCTGTGCAAGTAGAAAAAAAGTTCATGTAATAGATGGCTGCACAAATGGctacagtgcatcacagctacATAACAGATTACCGTGGTGACTTGTGACGAATTGTCGTTTTGTCAGGTTGAATCTGACAGATTTGTGTTTGATCAAGTGCGTCTGCAGCACCGTCTGCAGGGAGAACAGGACATACTGCAGCTAGTACACCTTTACATTACTGAAGTAATGCAAGGCCCTTTCAGAGCTGGTTAGATAGTCAGGTTTAAGTCCATCATGTGTTTACCTAACTGAGAATCTGACCaaagttaaaaattaaactccATACTTAGACCTCTACTAGGGGTTAAAGATCTTTGACTTTTTTTGGTTCTAAAAAGTATGGAGAATGGCCATTTCTACATTTTGGCCTCTTAGCACTTTTGCACATGCAGGTTAATGACTCCATTAAACTCATGACCCTACTGTTTTAACCCAcgccctaaaaaaaaaaagtcaaacactTAACAAAAGGGCTTTAAGTTTGTTGAAGTGCTGTCACTGTGTCACCAAAAGAAAGTGATAAAACACCTGTCAGCTCTGATGTTGTTCAACAGTGTGTGCTTCACAAAGCGTTCTTATACTGATTAGATTATTTAGGGTAATAAACAACATTTTCCCTTGTCAGGAAATTAAAACGCTTCAAAGAGTTACCTAGGAGGACATCTGGCGCTGGAAATGTCTTTCAAACTGAAGGGGAACATAAGACTGTTACAGATTTGATTACCATGAATAAAAGCAATGCAAAAAAGTttcacaaaaaatgaaatacaagaATGAGTCAATTTTGACCATTGCTTAAAGCTTCGAGTTCATAGTTTGGAAGGCAGTGTTTTGACATGTGGATGAATTTCCAGGAGGTGATGATGTAAAGAAAATCATAGTTAAAAAGACCTTTTGTTTGaaattgttatatatataaaagatgcTTACTTTTCAGACATAGCACATTTTGGTAATAGTAAGGTCACTGGATCTGTACTGCAACCTATGTATCAAAAAATTCAGTTACTACTTTGTAGAGCTAATAGGGCTTTTCTCATTTAGTTTAAACGTGGTAAgctaaacaaaatgaaaaaaaaaaaaaaaaacaagacattactttgaataatacatttttgtggATGTTAATGGTTATCAAGTTGTTCTAGTGAGACATAttgcatcctttttttttaggaaaaatgtacatttacagtaaaaagATGGCACTGTTCATATCAGctaatagttttatatatatagatatgagATGTTTAGTCTCACATTGTACATTCATTTTGTGCTAGTGACCATTACTGTTATCTCGTTCAGGTCACTATGGAGTACTGCTTTATGTTTGTTAATTGATTCACATACTTCATACTTCATCACATTAGTAAAGCTGAAGAACTTGTAACTAAAATGTGTAAGATGAATAAGTGGCCTTACTTTCATATAGGAATCAAATATAGAAATGAGTTATACAGTGGGATTTAAACAAAAGCACTGAGCAGCTTATGACAGCATGCACAGTTAGGTTAATGGTGATTTTGCATGAATTCTATATAATTATTGTATCCTATATGCTGTGGTCTTGAATATTTCTAATATTGAtctgatttttctttctctgtcagtCATCTCAGTTTCTTCGATGGACAATTCTGTGCATCAACACACTGAATTTCTTTGGTGGGAAGAACTACAAGTGTGAAATGACAACGAGTCCCCATGTGGTCAGACAGGCCAGTCTACATGAGGTGAACAATCCCTACTGTGACTGGCTTCAGTTCATGCTAAGAACCACAGCCTTCAAAGCACACAAAAACCAGCACGGATCTTCCCAACAACCCTTTGGATCAGAAGAAGATTCCTCCAGCTGTTGTTAGGAGAGGACGGTGGAGTACGTGCAGCACCCATCACCGTAAGTGATTCGGAAATGTTTAAGACAGTTCAAGgccatcattattttttttctttgtagagCAGCAGATATCCGTATTTCACCTTATATAACGTTCTCATCCACCACGTGACCTCAGCTCAACAGTcagtgaaagaacaaaaaaaggaacaaaaaaataacaaatgagCTAATAAAACTCCCAGTCTCTCCCAAAATGCCAACAGGCGTGACCATGctgtaaaagaaattaaatgcaaaaatatatgatttccatattgaaaataatgaaaaaaaaaaatggaactggccctttttttttgaaaagaaaaccaactcatatgaaaagaaaactcCTTTCAAACTCATCCCTTCCCTCCCGTAgtactctttctttttccatcagCGTCTTCATTGTCTTCAAGTTTAAGCGTGACGGGGTCAGGGAACGGGTTCGGGGCCGTTAAGCTTGGGCATGTCTCACTGACTCTGTCTTTAGTGGGGAGAGGATGGGAAGCAGCGTTGGACTCGACTCCAGTGTTTTCGGGTCTAGAGATACGGGTATTGGTTCATCTTGGTGGGGCTCAAGGGATATCCAGTGTAGACAGTGGAGGCAGGCGAAGCGCTGATGTATGTTTGGTGGGCAAACTGGGGCTGGTACTGGCCGTGGTGCAGCGTGGGGGATGGCAGCACACGGTGGCCCATGCTGACAGGTACCTGGTGCACAATGCTTGGTGGGTAGCCAGCGTGTTGGACTGCATGGTGTGCTGAACCCTGTGATGCCACCAGATGTGCCACAGTGCCAGTGGATCCCAGGGCAGCAGGGGTGGTGTACGTGTAAAGGTGGGGTTGGCCAGATAAGTGAGTGGCAGCTAGGTGGGGGTGCACATTAGCGCTGTGGGAGGGACTGTTGTGGTGAAAGGAATAGGGAGCTTGAGCAGCCATTGTGGGTGTGATATAGGCTTGCTGTCTCCTGTGTCCTCCATTTCTCTCTACCGCCAT

Function

GO: NA

KEGG: NA

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TU114736 lncRNA downstream 80891 9417022 ~ 9417414 (-) True G96679
TU114521 lncRNA downstream 159521 9326681 ~ 9338784 (-) True G96484
TU114462 lncRNA downstream 282490 9174664 ~ 9215815 (-) False cotl1
TU114463 lncRNA downstream 282490 9174664 ~ 9215815 (-) False cotl1
TU114448 lncRNA downstream 411634 9084327 ~ 9086671 (-) True G96421
TU114861 lncRNA upstream 246941 9750882 ~ 9772020 (-) False LOC113534661
TU114926 lncRNA upstream 315446 9819387 ~ 9884455 (-) True G96840
TU114927 lncRNA upstream 388585 9892526 ~ 9918433 (-) True tmtc2b
TU115159 lncRNA upstream 567612 10071553 ~ 10095358 (-) True G97054
TU115237 lncRNA upstream 763037 10266978 ~ 10271950 (-) True ttc38
XM_026927329.2 mRNA downstream 83918 9349891 ~ 9414387 (-) False tbxas1
XM_034305376.1 mRNA downstream 84165 9349891 ~ 9414140 (-) False tbxas1
XM_026927328.2 mRNA downstream 87762 9349891 ~ 9410543 (-) True tbxas1
XM_026927010.2 mRNA downstream 278101 9217244 ~ 9220204 (-) False LOC113534316
XM_026927009.2 mRNA downstream 278103 9217244 ~ 9220202 (-) True LOC113534316
XM_026927082.2 mRNA upstream 121122 9625063 ~ 9692085 (-) False fgd4a
XM_026927086.2 mRNA upstream 121122 9625063 ~ 9685539 (-) True fgd4a
XM_026927085.2 mRNA upstream 121122 9625063 ~ 9684958 (-) False fgd4a
XM_026927083.2 mRNA upstream 121122 9625063 ~ 9679234 (-) False fgd4a
XM_034305138.1 mRNA upstream 121122 9625063 ~ 9674658 (-) False fgd4a
TU114125 other downstream 1020069 8468301 ~ 8478236 (-) False LOC113534821
XR_003403522.2 other downstream 1884209 7442373 ~ 7614096 (-) False shank3a
XR_003403498.2 other downstream 2340817 7147944 ~ 7157488 (-) False LOC113534453
trnap-agg other downstream 2632966 6865268 ~ 6865339 (-) True trnap-agg
trnam-cau_19 other downstream 3304158 6194075 ~ 6194147 (-) True trnam-cau_19
XR_004578315.1 other upstream 764536 10268477 ~ 10294823 (-) False ttc38
XR_003403495.2 other upstream 764536 10268477 ~ 10294823 (-) False ttc38
XR_004578339.1 other upstream 2084060 11588001 ~ 11610964 (-) False arntl2
TU116624 other upstream 2808141 12312082 ~ 12314525 (-) False admb
XR_003403510.2 other upstream 2893746 12397687 ~ 12405281 (-) False znf143b

Expression Profile


Homologous

species RNA id representative length rna type GC content exon number chromosome id location
rainbow trout (Oncorhynchus mykiss) TU51121 True 5987 lncRNA 0.39 2 NC_048565.1 42558706 ~ 42564726 (+)
eurasian perch (Perca fluviatilis) TU119238 True 6262 lncRNA 0.42 2 NC_053119.1 27975965 ~ 27982294 (-)
bowfin (Amia calva) TU141619 True 5575 lncRNA 0.38 2 CM030134.1 23547797 ~ 23554739 (-)
tiger barb (Puntius tetrazona) TU119238 True 406 lncRNA 0.28 1 NC_056709.1 10628554 ~ 10628959 (+)
tiger barb (Puntius tetrazona) TU189695 False 5888 lncRNA 0.37 2 NC_056716.1 22970436 ~ 22992776 (-)
mexican tetra (Astyanax mexicanus) TU189695 False 443 lncRNA 0.46 4 NC_035912.1 9590307 ~ 9591817 (-)
mexican tetra (Astyanax mexicanus) TU213752 True 3183 lncRNA 0.37 2 NC_035914.1 11136430 ~ 11143469 (-)