RNA id: XR_004577299.1


Basic Information

Item Value
RNA id XR_004577299.1
length 2597
lncRNA type inter_gene
GC content 0.38
exon number 3
gene id LOC117596131
representative True

Chromosome Information

Item Value
chromosome id NC_047620.1
NCBI id CM018566.1
chromosome length 19313417
location 13853076 ~ 13860774 (-)
genome version GENO_Phyp_1.0_2019_striped_catfish_Genome
species striped catfish
(Pangasianodon hypophthalmus)

Sequence

catgtacaTAGTTGCATCCATCCTCCTCTTCAGGGAGGACTAAGACAGCTCCATCCTTAAATCACATTTGCCCCACTCAGCTTGATGAATGGAGCCCAGAAGATGCCTTGGCAAACCCGAGAGAAACTCCAAATTTAGGCAGTCATAAGCTCAGTGTTTCAACTGGCAGTGTTTGTGTGGCTGGGCGAGCTTTGAGTTGCTTCACGGTCAGTGGACCACCAACCGCAGCCTCCTGGGTGGTCGTCATAGAAACCACAGCACGAAAGAGGCGGTCAACAGAGTAGAGGACAAAAAGGTATGTCGATGACTCATtgaaaagtatgtgtgtgtgtgtgtgtgtgtgtgtgtgtagtattcCTCTGAGATCTTTCTTATTGACTGTTCCATCAAGGATTAAGCCAGGTTTCCCCTTGGTTGATTAGAAAAGGAGGAGGCTTTGTTTAAAGGGCTGTCATGATGAAGCGCTGGGAGATAGGAGCAAATTTAGCTCTTTCCGTCCACCAACATATGACTGAACAGCAAGCAAAAGTCACTTTCCCATAACAAGCCTCCACTCTCGTCATCGTATTCACCCTCCTCCTCTTAATCCCACAGTTGGTTTGGTTTCCTTCAAATGGACAACAGGTTGGACGTGCAGTTTTTCCCTTTTGTGCCccaacaaaaattacaaaacactTGTTTACAGGGAACTATTGCAGTTTAATATGCAGCATGCAGGAAACAGCTGGGTTTCTATTTCATTAGCATGTCTGTTTTGAATGctgatgaaatgtaatgaaattctcttccctccatctgtACTGTAGTTTCAACGTCTGCTGAATTGTCCTGAGCTCGTTATGATCTTTAAATGATAATTCCAGATGGAAAAACAAAGCCAGACTGCATGTTTGTCAATCAGTCATCTTAGATTAAAATATAATCTAGGctcttaggaaaaaaagattCTTCAAGGTTTGCTTAAGGTTTCATTGGATAAGTTCAAGTTCTAAGCTACTTAAAATGGTTCCACTTGGAACCACTTACCTTTAAGAGTTCAGAGCCCATGGCTTTAGTCAAAAAGTGATAACATGGAGTGCCAGAACAAAAccaaacatttaattatttatagccataaactatcattaatggttaagcattacaAGGTAACCTTCACGCATGTTAGTCAACTATCCTGACCTTTTGTGAGTGAGGAATTTTATATAACTGGACCTTCATAAGTTTTTGTTTAATACCCCAGGCTTAAGGATTTTAAATGTAGGTCGGGAGTGTCAGACTGCAGTCCCACAAGGTCACAGCCTTTTTAGCATACCATATTCAGTCCGTGAAGGTTTTACTAATTAGCTGATGTTCTAAATAAGATTGAACTCTGAAGAGCTTTGACCCTCGACTCAGCCTCCCTACACTTCATTACTGGTTCATATTTTGCGAAGTGATATATAGCATAATTAGATGCTTTTATTGAAATCAAAGTGACTCAGAAGTGAGAAACAATTCTATAAACTGATGCCATAACTTTTGATTGATGGCTCTTTACCCATTTTGTTGGTGACACAGAGAACTAACAGGAATTTATTCTAAAAGAAATTCTCACCATACATTTTACCATGGATGAAACAAGGTACGTtcaatttaaattcaatttgaaCAGTGAGTTTGGAGATGCATTGAATGAAGTCATGTGTGGTGTGATGTTGATCCAAAACAtttgggagttttttttttgtttgtttgtttttttaggtACGGCCTAAATAACGTAGCACAGTGGGTTAAAtagaataggaaaaaaatatcGTTATTAACCATTAACAGAGATTTGAAGTTAACATTTCTGTTCCAGAGCAGTTAAGGATGATTATGTTTTCAGTTACGTGTTTGTTCTTAGGAAAATaatgttcatttctgtttttatgtttttgatcTTGCAATTCAGAGCCCTGATTGTTTTTAGCTTCGGACCAAGGCTGCATCTCAATATTAGTCCTACTTGATCTTAGTGCTGCATTCGACACTATAGATCATAACATTCTCGTAGATCGCTTACAAAATCACATAGGTATTCAGGGACaggcattaaaatggtttagatcCTACCTGTCTGATCGATAccattttgtagatttaaatggaGAACTATCCAGTGTAATGCCAGTGAAATATGGGGTTCCACAAGGATCAGTTTTAGGACCTCTGCTGTTCTCAGTTTACATGCTTCCCTTGGGTAACATCATTAGAAGACATGGGATTagtttccattgttatgctgacgaTACCCAGTTATACATCTCATCAAaaccagatgaaataaataaattgtctagattaactgagtgtgttaaagatataaaagattggatgactgataattttctgttattaaatcctgataagacagaaatattacttATTGGTCCAAAAAACAGTACACAAAAGCTCTCTCAATTCAACTTGCATTTAGAAGGATGTTCTATTACTACTAGCTCGACAGTGAAAGACCTGGGCGTAATATTAGACAGCAgcttgtcttttgaaaatcatatttccaatactactaaaacagccttcttccaccttagatacattgccaagcttag

Function

GO:

id name namespace
GO:0007229 integrin-mediated signaling pathway biological_process

KEGG: NA

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TU444800 lncRNA downstream 16543 13836098 ~ 13836533 (-) True G375615
TU444799 lncRNA downstream 18096 13832468 ~ 13834980 (-) True G375614
XR_004577284.1 lncRNA downstream 22505 13829181 ~ 13830571 (-) True LOC117596119
TU444638 lncRNA downstream 332153 13520563 ~ 13520923 (-) True G375466
XR_004577351.1 lncRNA downstream 345943 13504304 ~ 13507133 (-) True LOC117596174
TU445042 lncRNA upstream 111562 13972336 ~ 13974094 (-) False klf5a
TU445091 lncRNA upstream 218190 14078964 ~ 14085441 (-) True G375864
TU445072 lncRNA upstream 245448 14106222 ~ 14180614 (-) True rnf11a
TU445099 lncRNA upstream 260724 14121498 ~ 14125258 (-) True G375871
TU445153 lncRNA upstream 413553 14274327 ~ 14275118 (-) False dand5
XM_026931655.2 mRNA downstream 374818 13476472 ~ 13478258 (-) True cldng
XM_026931688.2 mRNA downstream 425922 13417325 ~ 13427154 (-) True creb1a
XM_026931689.2 mRNA downstream 425923 13417325 ~ 13427153 (-) False creb1a
XM_026931800.2 mRNA downstream 504242 13331029 ~ 13348834 (-) True cd99
XM_026931799.2 mRNA downstream 504250 13321263 ~ 13348826 (-) False cd99
XM_034300257.1 mRNA upstream 6914 13867688 ~ 13902247 (-) True lmo7b
XM_034300254.1 mRNA upstream 6914 13867688 ~ 13902245 (-) False lmo7b
XM_034300256.1 mRNA upstream 6914 13867688 ~ 13902245 (-) False lmo7b
XM_034300255.1 mRNA upstream 6914 13867688 ~ 13902245 (-) False lmo7b
XM_034300253.1 mRNA upstream 6914 13867688 ~ 13902245 (-) False lmo7b
TU444599 other downstream 413541 13439219 ~ 13439535 (-) True G375428
trnar-ucu_18 other downstream 524933 13328052 ~ 13328143 (-) True trnar-ucu_18
trnar-ucu_17 other downstream 526992 13325993 ~ 13326084 (-) True trnar-ucu_17
trnar-ucu_16 other downstream 527468 13325517 ~ 13325608 (-) True trnar-ucu_16
trnar-ucu_15 other downstream 528903 13324082 ~ 13324173 (-) True trnar-ucu_15
XR_004577357.1 other upstream 121971 13982745 ~ 14016085 (-) False pibf1
TU445045 other upstream 166520 14027294 ~ 14030879 (-) True G375826
XR_003403797.2 other upstream 176957 14037731 ~ 14037862 (-) True LOC113537775
XR_003403796.1 other upstream 177754 14038528 ~ 14038598 (-) True LOC113537774
XR_003403798.1 other upstream 178080 14038854 ~ 14038986 (-) True LOC113537776

Expression Profile