RNA id: XM_034301731.1


Basic Information

Item Value
RNA id XM_034301731.1
length 2460
RNA type mRNA
GC content 0.38
exon number 4
gene id LOC117596455
representative True

Chromosome Information

Item Value
chromosome id NC_047597.1
NCBI id CM018543.1
chromosome length 33776708
location 18973637 ~ 18976601 (+)
genome version GENO_Phyp_1.0_2019_striped_catfish_Genome
species striped catfish
(Pangasianodon hypophthalmus)

Sequence

ATGCGTGCATTTGATGGAGGAATATTCCCCCTCATATTCTTCCTTCTCATCCAGAATGGAAATGGAGAGGAGTGCACAAAGATTAGAAACAATCGACACTATTCATGTGAAGGAAGGAATCTCACCTATATACCTAGCAGTATTCCTTCATCTGTAGAGACACTGGACTTCAGTTTTAACTTGTTGCCTTCTTTACAAAAGCATCTGTTTCCTCCACTGAATGATTTGCAGGTCCTGGATCTCACAAGATGTCAAATCCAGTACATTGCTGATGATGCTTTCCACAATGTGAAGAATGTGACTACTCTAATTCTTACTGGAAACCCCGTTTCATACATAGCACCTGACAGCTTGAACTCATTACATAAATTACAGAGATTAGTTCTCGTGGACATTGGCCTGCTGTCTTTAAATGTGCAGTTCAACAATCTCACCAAGCTTCAGGAACTAAAAGCTGGAAGTAACAAGATTCAAACAATTGCTCTTCCACCATTCATGATCAACTTTAAAGACTTCTGCGTACTGGACCTGCATGCAAATAACATATCCAGAATAAAAGTAAATCACACGGCTGTACTGTACTGCGAGATGAGGGGAAATATCACTCTAATACTCTCCAGCAACCCAATATTACATATCGAACCAGGAGTATTTAAGGACATTTACCTAAAAGAGCTTAACATACAGAGTGCTTTCGTTTCATTTGATGCAATGAGGTATGGTCTAAAAGCTCTCAGTGGTCTTAATGTTGGAAAACTCATTATAGGAAACTACAGACTAAGCCAAGTGATAAAGATATCAGATGCTGATTATCTTGCTGGTCTGTGCTTGATACATTTCACAGAAATATATTATCTCCAAAAAGAACGGTCAccttttaacattaacatgttcCACTGCATGGTCAATGCAACGAAGATCACTCTGAGAAGAGGAGCTCTTACAGGCATGGAACATGTACCATTTCATCAACTTAAAGAACTATACATAGGTGACCATCATTTATCGATATTCCCAGACCTTTCACATGCACATTCCTTAGAAAAATTGGTGGTGGTTGATAACAATGCAATGTTATTTCACGGTCTCAGTGACATGCCCAAACTCCAGCATGTGGACCTGAGTAGAAACCAATTGATATTACAAGATTGTTGTTCCTGTTATTTCAGAGACACGCCAAATGTTCGCCACGTGAATCTAAGTCTTAACGCAAATATATGGTTGAATGAAAAACCATTTTACTATCTTGGATTGATTGAGGTATTAGATTTCCATCAAACAAAACTAGATCTAATTGGACAATTTGGAGTCTTACAAAATTTGAAGTATCTAAAATATTTAGACCTTTCATACACAAGAACTACTTTTAGTAGCTATGTATGTTTCTATGGGCTTAAGAGTcttaaaatactgaaaatagcAGGCAATACTTTCCAGGGAAATACACtgtcttatttatttgaaaatctTACAGCTTTGGAGGTTCTTGACCTGTCACACTGTGGCATTGATCGAATAGACTGTAAAGCATTCAGAAACCTCCAGAAGCTTAGCCAGTTACTTCTTAGTCGAAACAACTTGATGGTTTTGGATTTTTTGACACAGCCAAATCTACAAAGTCTAACATGGCTAGCTGTAGACCAAAATAGTATTTCTGTTATTAAACTTAATACGCTCCAAAATATACCAGCGAACCTCTCTGTTTTTGACATATCTTCTAATCCAATCAGTTGCTTCTGCACccaaacagattttattttgtggataataaaacaccaaaaaatatttcctcagtcttataatattttatgtaaaacagTATCATCAGATTCAAAAATTAGACTTATTGACTTTGACACTGAAGGCTGTGTACATATCAGAAGACTGACAATTGTGTTATGCATATGTGCTGTCACTTTTCTTGTTATTGTATCAGTTTTGACCTACAAATTTCAGTTTTATCTGCGATATGGCTATGTCCTGCTAAGAGGTTATAGGGCCTCCAGACAGCAGGAATGTTCTTATGATGCCTTTGTTATCTACTCCAGCAAAGATGAATCATGGGTAATGGATGAACTGGTGGAAAATCTGGAAAATGGGAGTCCACCCATTCACCTTTGTCTTCATGTGCGGGACTTTGAAGCTGGCAAGGCCATTACCTCCAACATTATAGATGAAGGCATCATGGGTAGTCGTAAAATTATTGTGGTTGTATCTAAACACTTCGTTGAGAGTGCCTGGTGTCGTTTTGAATTTGAAGTGGCGCAGTCTTGGCTAGTGATGCAAGGCAAtgctaacatcatcatcatcattctagAAGATGTGGAGGAGAAGTCAAAGAAGGTGTTTGGTCTTCATAAGCACCTGAAAAACAATACGTATCTAAAGTGGAGTGGAAACCCAATAAATAACATGAGATTCTGGATTCGTCTTAGGAAAGCTGTGATCACAAGAAAATAG

Function

GO:

id name namespace
GO:0002224 toll-like receptor signaling pathway biological_process

KEGG:

id description
K10160 TLR4, CD284; toll-like receptor 4

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TU57833 lncRNA upstream 5860 18967406 ~ 18967777 (+) True G48908
TU57821 lncRNA upstream 61460 18911486 ~ 18912177 (+) False zgc:110319
TU57584 lncRNA upstream 262342 18708032 ~ 18711295 (+) False G48690
TU57585 lncRNA upstream 263266 18708032 ~ 18710371 (+) True G48690
TU57372 lncRNA upstream 271731 18700856 ~ 18701906 (+) False G48482
XR_004577820.1 lncRNA downstream 37590 19014191 ~ 19015574 (+) True LOC117596836
TU57789 lncRNA downstream 50406 19027007 ~ 19036636 (+) False selenou1a
TU57791 lncRNA downstream 50406 19027007 ~ 19036636 (+) False selenou1a
TU58057 lncRNA downstream 225629 19202230 ~ 19203687 (+) True G49104
TU58081 lncRNA downstream 238191 19214792 ~ 19216880 (+) False grxcr1b
XM_026932800.2 mRNA upstream 431 18968494 ~ 18973206 (+) True LOC113538004
XM_026938324.2 mRNA upstream 9762 18958384 ~ 18963875 (+) True si:ch211-198a12.6
XM_026938333.2 mRNA upstream 9762 18958384 ~ 18963875 (+) False si:ch211-198a12.6
XM_034302736.1 mRNA upstream 9762 18958385 ~ 18963875 (+) False si:ch211-198a12.6
XM_026938315.2 mRNA upstream 9762 18958385 ~ 18963875 (+) False si:ch211-198a12.6
XM_026942747.2 mRNA downstream 633 18977234 ~ 18981316 (+) True ftr14l
XM_026939350.2 mRNA downstream 6505 18983106 ~ 19010647 (+) True zgc:154058
XM_034302687.1 mRNA downstream 6505 18983106 ~ 19010647 (+) False zgc:154058
XM_026939343.2 mRNA downstream 6505 18983106 ~ 19010647 (+) False zgc:154058
XM_026939360.2 mRNA downstream 6505 18983106 ~ 19007275 (+) False zgc:154058
TU55884 other upstream 2736989 16234535 ~ 16236648 (+) False lrrc18a
XR_003404341.2 other upstream 2900570 16070714 ~ 16073067 (+) True cxcl18a.1
TU55689 other upstream 2901717 16070759 ~ 16071920 (+) False cxcl18a.1
TU55629 other upstream 3176433 15793428 ~ 15797204 (+) False eif4ebp2
XR_004577898.1 other upstream 4606191 14361367 ~ 14367446 (+) False cgas
XR_003403773.2 other downstream 364749 19341350 ~ 19356098 (+) True sfxn5a
XR_004577568.1 other downstream 364749 19341350 ~ 19356098 (+) False sfxn5a
XR_004577569.1 other downstream 364749 19341350 ~ 19356098 (+) False sfxn5a
XR_003403774.2 other downstream 364749 19341350 ~ 19356098 (+) False sfxn5a
XR_003403775.2 other downstream 364749 19341350 ~ 19356098 (+) False sfxn5a

Expression Profile