RNA id: XM_026916909.2


Basic Information

Item Value
RNA id XM_026916909.2
length 4004
RNA type mRNA
GC content 0.39
exon number 1
gene id LOC113528389
representative True

Chromosome Information

Item Value
chromosome id NC_047607.1
NCBI id CM018553.1
chromosome length 26458119
location 3756985 ~ 3760988 (-)
genome version GENO_Phyp_1.0_2019_striped_catfish_Genome
species striped catfish
(Pangasianodon hypophthalmus)

Sequence

CAAAATGATGATATGCCTGTGAAAAAGCGGAAGTGTGAGCTCATGGTCTATTTTGATGCTCCAGGAAATGTCTATTACTTTAAATGCTTCAACCCAGAGAAGATCATCTTTACTGATATCTACACACCCTTTGGAGTGTCTTGAGAAACTTGAGAATGATCTCTAAAATACAAAGCTCAATCTAAAATTCTTAAACATAATGTTTCAGGAATTACAGTTATTTTAATTCACTGGGATTAAAAAGTGCTCAGGACAAAACAGCTTTACCAAACAAGTCTGACCTTCTGTTGCATCTCTTGGACAAGGCAagataaaaacatgcagtttttttattttgttttcacaaACCTTCTGACTTGTGTGCTGTGTTGGGTGTCTGAAAAATGTTTGGTCTTTGAAGATTACTTGGATGTAAACATAGTAGGTGAATGTCCCAAAAGTAACCTAACAGGATACTGTAGAGACGTCTCCAATGTGGCACTTGATCTTGCTGGAATTCCATCTCAAATTGAAGTCCTCTGTTTGGACCTTGTGAAGGATTCGAGTCTGCATCCTTATTCTCTCTCAAGGTTTCAGAAGCTCATGAACTTACAAATCATAGGATCCATCTCTGCTGTCCTCCCTGGagcttttaaaaatcttttgaGTCTGCAAAGTCTGGAAATTAACTGCTTACAATCTTTAAATTTCTCCCTTTTGTCTGAGATTCTCAGTGACCTTAAGAATGTCACAACTCTTTCATTCATCAACTGCCGGCTCTCATCCATGGCAATAGACGTGTTCAAAGGACTCGTGAAGTTGGAAAAACTCGCATTCATAAACAGCATAGAAGACTTTTCTGAGATGTTGTGCAGATTAACATTTgtgtcatcatcattaaactATTTATATGTGGATGCTGGCCATTTAGTTATTCTTAGACAGCCAAATTGCACTTTTCCTAATGGGACTTCTTTTGATGTTGAAGAATTCCTTGGAATTGAAAATGTCAGTCTTACTCTTGACAGGGTTAGAGTAATGGATAAAACAGTGTTGAAATACTTCAAGAAAATTTCTCTTTTAGCAATAGAATTTACTGCATTTGAAGTTATAAAATCTGAAATTACAAAAGTAGATACTTTActgataaaatattttgctgAGAAGTTAAGCAGTATTGAAGAAATCTGTGACTCTGCACATGAACATTTGATGACTGCATTGAGTGTAACATTCTCATATGTAACTGATTCGTTCGTGCCCAATTTAGATAAATGCATGTGGCTTGAAAGCTTTGATATGACGGCAATTAGTAGTCAAGATAAAtcaattaatttaacattcatCAACGTTTTGAGAAACCTTATAACACTGACGATTAATTGGAGGCTTACCCCGGAGAGTAATAATAGAGATAGGGCTTTGGCACTGTGTGAAAATCAGGGTGATCTTGTCACAAAACTCAAGACAGTGAATCTTCAGACAAACATTTTCAGAACTATCAGCTACAGATATTTTAGTTGCCTACAAGATCTTGAGGTACTGCAATGGATGTACAGTGACATTGAACATATTGAAGATTTTACGTTTAACAAtacaaatttgcttaaaattCTGGACCTCAGTTCTAATAAAATATCTCAACTTACAAAATATACCTTCTTCGGTTTATCTAACCTAAAAACTCTCCtaattaatgaaaataagtTGCTTGTCATTGAGGCAGtgactttaattcatttaacaTCTGTAGAGTTTGTAAGTTTGGGAGTTTTTCAGTATCCCTCCTCTGAACCTTCAAAGATCCAGATCAACCTCAGCGTTCCTGAAAATTTGACTAAGTTGTACATCAGCTCTGGAATAAAACCAATGACCCTTATTTTAAGCAACAGCAGGAAATCTAAAGCGGGCCTCAGCCTCCATGTTTGTGGCCAGTCTGTGACTTTTCAGGATTGTGACAATAACCTTTTCAAATCTCTTGTCCAATTAACTGCAGAGACAGAGCAGTTGCTTTGTGGTCAGTCTTTTCCTGGGCAATTCCTCAAGTCTCTGAAGCACTTTATTATCAAAGCAAATCACAAGACGGAACAAATGAACTTGACAGATTTGAACCAACTGGTCAACCTAAAGAGTCTGGTCCTTTTTAATGTAGATTTGTCTCATCAGTCTGGTCTTGATGTGATTTTTCGCAACCTCTCCAATCTGGAGTATCTATATATGTCCTTTTGCTCTGTACCTTTGTTGGAGAAAGACATGAGCAGAGACCTGAAGTCACTAAAAGTGCTGTTTTTGCATGTAGCTgatgtgttcagtgtgatggAAAACTTTGTAGAGCCCCTGAAAAACCTTCGATATCTTATCATGAAACAAGCAGTTCTACACTGTAGCTGTGACAACGCTTGGATTACCAATTGGGCAAAGTATCAACAGAGAGTTCAAGTGTATTTCCATGGGAGCTCACTTGAAAGGCTGCTATGTAAAACTGCAGAGGGAACCAAGTTcctgcataagtatgcacaagACTACTGTTTTATTGATTTGGACTTTCTCCTTTTTGCCTCCACCTCGCTGGGACTGGTGTTCTTCATGCTGGTAGTGCTGCTCCATCAGCTGGCTGGAGATTATCTGCTGGCTTTCTTTCACATAGCTCGTGCCTGGGTAGAGGAGGCCATGAGGGCAAACAGAAAAGGACATTACCACTACGATGTTTTTGTGTCCTACTGCGGGAAGGATGAGCGCTGGGTGGTGGATGAACTTCTGCCCAACCTGGAGAAACGTGGACCCCCTTTCCTCAGGCTTTGCCTGCACAGCAGGGACTTTGAACTGGGAAAGGACATTGTGGAGAACATCACGGACAGCCTCTACAGAAGCCGACACACCCTCTGCCTGGTTAGCTGCAATTACCTCCGGAGTAACTGGTGCTCTTTGGAGATGCGTTTGGCAACTTATAGATTGCTGGCTGAACACAGGGACGTTCTCGTTCTGGTCTTCCTGGAGAAGGTTCCTCATCAACTCTTAAATGTACACCATAGACTGTCCCGGCTGATGAAAACCCGGACCTACATAGACTGGCCACAAGACCCAGCCTTGCATAATGCATTCTGGGATAGACTATGGACAAAGCTTACATCTGAAACTGCAACCTagattaaaatttattttttagcatAAGATGTACTGTACTCagtgtattatattacattttgtaacatatttccaagaaaaaatGGCATATTTAGGAAGGCAGGACTTTCATTTTGTCCATCAGGGCAGTCTAAAACATACATGGTCACATTATCCTGCAACTTACTGTACTATCGGACTACTTACCTCCCACAACAAATAAAATTCTGCTCCTGGAGGATGCAGATGGAGGAAGAAGACAAAATTTCATCCCCATAATAAGGCCATATTTATTTGCGCCTGTACATCCAGCCAGTAATGGAGGCAGTGACTCGAATGCCATGCCATTTGTTATCAACCTCCCAAGCATCTGGAGAAACTCTGAGAGGAAGGGGAGAGAAACATGACACAaaattattgctttttttgttcCTGTCCAAAATTCTACCCCAAAGTAATAAGGAGGCTGTTCACAGGTTCTATATTAAAAGTGAATGGTACATACGAACCATGCACATTTTCAACCAAGAACATGAGCAGCTATCATAGAAAACACTTTTCTTACTGGTTGTAGAAGTTGGTTGTagaaaattattgtttttttttttttttttgtttttttaggccATTTCTTATGAACATAGTACTTTTATAATGAATGTGAACATATTcacattcttttgttttatgaaCATGACTAGTTTGCAGCATTAGTGGAAAGTAAGAGAGCATATCTTCACTATGCTATATGAttttaaatctcattttcaAATCTTTACATGAATACTTCTGGCAAATTAAAATAGTATTCCACTGTATTAcgaaataaaagtattttactTCAGGACATGTTTACTAAGGCACTTTTAGAGGCCATGCCTGCATGTGTGATGTATCTTACA

Function

GO:

id name namespace
GO:0042116 macrophage activation biological_process
GO:0031663 lipopolysaccharide-mediated signaling pathway biological_process
GO:0050829 defense response to Gram-negative bacterium biological_process
GO:0034142 toll-like receptor 4 signaling pathway biological_process
GO:0002755 MyD88-dependent toll-like receptor signaling pathway biological_process
GO:0046696 lipopolysaccharide receptor complex cellular_component
GO:0004888 transmembrane signaling receptor activity molecular_function
GO:0001875 lipopolysaccharide immune receptor activity molecular_function

KEGG: NA

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TU242874 lncRNA downstream 18026 3704283 ~ 3738959 (-) True G205063
TU242844 lncRNA downstream 125602 3630694 ~ 3631383 (-) True G205040
TU242834 lncRNA downstream 136866 3617171 ~ 3620119 (-) True G205030
TU242842 lncRNA downstream 154746 3601002 ~ 3602239 (-) True G205038
TU242401 lncRNA downstream 582708 3171262 ~ 3174277 (-) True G204664
TU242898 lncRNA upstream 7867 3768855 ~ 3776450 (-) False kcnc3a
TU242900 lncRNA upstream 7867 3768855 ~ 3776450 (-) False kcnc3a
TU242970 lncRNA upstream 187861 3948849 ~ 3957710 (-) False G205145
TU242972 lncRNA upstream 187861 3948849 ~ 3957710 (-) True G205145
TU242974 lncRNA upstream 187861 3948849 ~ 3957710 (-) False G205145
XM_026916349.2 mRNA downstream 73662 3672980 ~ 3683323 (-) True prkar1aa
XM_026916575.2 mRNA downstream 87683 3658456 ~ 3669302 (-) True rac3a
XM_034310233.1 mRNA downstream 99698 3641953 ~ 3657287 (-) False gps1
XM_034310232.1 mRNA downstream 99698 3641953 ~ 3657287 (-) False gps1
XM_034310231.1 mRNA downstream 103403 3641541 ~ 3653582 (-) True gps1
XM_034309836.1 mRNA upstream 12595 3773583 ~ 3865700 (-) False kcnc3a
XM_034309833.1 mRNA upstream 15908 3776896 ~ 3865706 (-) True kcnc3a
XM_034309835.1 mRNA upstream 15908 3776896 ~ 3865705 (-) False kcnc3a
XM_026916273.2 mRNA upstream 15908 3776896 ~ 3865704 (-) False kcnc3a
XM_026916270.2 mRNA upstream 22575 3783563 ~ 3865847 (-) False kcnc3a
XR_004579380.1 other downstream 343218 3382831 ~ 3413767 (-) False nde1
XR_004579378.1 other downstream 343218 3399745 ~ 3413767 (-) False nde1
XR_004579379.1 other downstream 343218 3399745 ~ 3413767 (-) False nde1
XR_003402972.1 other downstream 600276 3156617 ~ 3156709 (-) True LOC113528657
XR_003402970.1 other downstream 601555 3155296 ~ 3155430 (-) True LOC113528655
TU243007 other upstream 279493 4040481 ~ 4044575 (-) True G205173
XR_004579349.1 other upstream 331925 4092913 ~ 4117643 (-) False dcaf7
XR_004579368.1 other upstream 961429 4722417 ~ 4734886 (-) False mlx
TU243400 other upstream 967106 4728094 ~ 4734805 (-) False mlx
TU243535 other upstream 1328348 5089336 ~ 5091922 (-) False G205633

Expression Profile