RNA id: XM_021620681.2


Basic Information

Item Value
RNA id XM_021620681.2
length 2503
RNA type mRNA
GC content 0.44
exon number 3
gene id shh
representative True

Chromosome Information

Item Value
chromosome id NC_048575.1
NCBI id CM023229.2
chromosome length 86280908
location 33573702 ~ 33582073 (+)
genome version USDA_OmykA_1.1_2020_rainbow_trout_Genome
species rainbow trout
(Oncorhynchus mykiss)

Sequence

ATAGCAGTAAACGCGGTCTGCTCGCACAAGCGGCTGTAGCTCGACTGCGCAGAGATTCCGTTGTTAATTTTCTCACTTTTTACCCAAGCAGCAACGTCTCTCCTTCGATGTGTTCCGTTATCATTTTTGCAGAGGCGTTCATTTCCGCACCTGCCACGGTAGTGATCGGGGGGCACCGTAGCCTACAGACGAACTAGAGGAGGAGACAAGGACATTGTGGAAGCAGCCGCGCGAGAGGGAGGAGAAATATAGAAACAAACGGCCGCTGGTTGATAACACACTGAGGCTCCGAGTCATTTAGATTTTATGGACGAAATGCTGCTGTTGACGAGAATCGTTCTGGTCGGGTTGATCTGCTTGTCCTTGTCCGTGTCCTCTGGGATGGGCTGTGGACCGGGCAGGGGCTACGGTAGGAGAAGACATCCGAAGAAGCTGACACCTCTTGCGTACAAACAGTTCATCCCAAACGTCGCGGAGAAGACCCTAGGGGCCAGTGGCAGATACGAAGGGAAGATCACGCGGAACTCCGAGCGATTTAAAGAACTGACTCCCAATTACAATACTGACATTATCTTTAAGGATGAAGAGAACACCGGTGCGGACCGGCTCATGACTCAGAGATGTAAAGACAAGCTGAACTCCCTGGCGATCTCTGTCATGAACCAATGGCCAGGGGTAAAGCTCCGCGTCACCGAGGGCTGGGACGAGGATGGACACCATTTCGAAGAGTCGCTACACTACGAGGGAAGGGCAGTGGATATCACGACCTCCGATAGAGACAAGAGCAAATACGGCACGCTGTCCAGACTAGCAGTGGAGGCTGGGTTCGACTGGGTCTACTACGAGTCCAAGGCCCACATCCACTGTTCTGTCAAAGCAGAAAACTCAGTTGCTGCCAAATCAGGCGGTTGCTTCCCAGGCACTGCTTCGGTGACTCTCAAAGATGGAAGCAGGAAGGCAGTGAAAGACCTCAGAGTTGGCGACAAAGTGCTAGGTGGCAACAGTGATGGGGACCTCGCATACAGCGACTTCATCATGTTCATGGACCAGGACTCGTCAACTAGACGAGTATTTTATGTGATAGAGACTAAAGAACCGGCTCAGAAAATTACACTTACTGCTGCACATCTCCTCTTCGTGGTCAACAACtcaacggatgatctccacagcATGTCAGCAGTATTTGCCAGCGAAGTCAAACCTGGACAAAAGGTGGTTGTCTTTGATGATTTGCATAACCAACTGAAGTCAGTCACCGTGGGTCGGATTTACATGGAGGAGCACGAGGGGTCCTTTGCGCCCGTGACTGTTCAAGGAACCATCGTTGTTGATCAGGTGCTTGCGTCATGTTACGCGGTAATTGAAGACCACAATCTAGCGCACTGGGCGTTTGCACCTGTCAGACTGAGCTACTGGCTGTCCTCGTTGCTATCCCCGAAAGACTACTCGATGCCCAACGCCACCTTACATGAGGACGGAGTGCACTGGTACTCCAAAATTCTATATCAATTAGGAACGTGGCTCTTGGATAGCCACGCGCTTCACCCACTGGGGATGTCAATAAACTCAAGTTGAAGCAAAGCAAAATAAGACAATAAACAATAGTGGAATGAAAAATACAAAGCCCCCAGCGAAGTTGGGATATTTATTTCAGTGACTTGTACATGTGTGTCCCTTTTAAAGAATGAATGGAGCCTTAAAAGTTTTATTTGAATCATTTATTCTCATGTGAACTGGCTGGTATCACACGGATGGATCCTAAAACGGTGTGACCAGCAAAATTGTGCAGAATCTATTTTTGTATATCTCCAAGTAAACCACAAAGAAAAAGAAGACCATGTTAAAAGGAGCAAACTTCTTGACAGGTTGCAATGTTCTGTGCATATTATGTGCAACTGACTGATATATTTTGGGGATAAACAAACTTCGTGGGGGTCCATAAATTATATTTTTATACACAGAATTGTAAATTTGATTTTGACAGATCGTTACCGAATCACATTTCGTTATTTGAAATAGTGTTAGATACGagaatatattttaatttaaatAGTTGGGAAAAGTCTTGGAAATCTTGTTTTGTTTATTAAGAATTGTATTATTTTGGAAACGTTTCATTTAAATTGTCAGATTGGGACAGATATTCTGCCTCGTATAATTCTTTCCTCAGCTTTTGTTGTATTTCTTTTTTCAATTTTTCTTTTAGAAAATTTGAAATGCACATTCTGACAATTCAGTAACAGTTTAAGTAGTACAGAACAAAACGTTTCGTTGAATAAATTAAAAAGTAACTCCTGTAAATgtactaaaatgtatttttcttttcATATTTTGTAATAGGGAAATAGTTTTATAGAAATAACATGCGGCAGATGCACAGTTTGGATAGTATATAATAGCGTTCAAGTTAACTTTCATAACAGGGCGATGTGTCAAAAATGTCTAGAGTTTATTATTTATATGTTTATTACAAAATGAGATAAAGAAAATATTCAAACCTGCA

Function

GO: NA

KEGG:

id description
K11988 SHH; sonic hedgehog

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TU1104378 lncRNA upstream 35291 33538197 ~ 33538411 (+) True G969416
TU1104377 lncRNA upstream 35893 33537583 ~ 33537809 (+) True G969415
TU1104310 lncRNA upstream 86141 33487283 ~ 33487561 (+) True G969348
TU1104309 lncRNA upstream 88841 33484437 ~ 33484861 (+) True G969347
TU1104308 lncRNA upstream 90596 33482896 ~ 33483106 (+) True G969346
TU1104407 lncRNA downstream 1094 33583167 ~ 33583439 (+) True G969444
TU1104408 lncRNA downstream 1392 33583465 ~ 33583674 (+) True G969445
TU1104403 lncRNA downstream 9127 33591200 ~ 33592147 (+) False G969440
TU1104402 lncRNA downstream 9624 33591697 ~ 33594127 (+) True G969440
TU1104404 lncRNA downstream 12474 33594547 ~ 33594805 (+) True G969441
XM_036935323.1 mRNA upstream 99812 33411705 ~ 33473890 (+) False LOC110535592
XM_036935321.1 mRNA upstream 99812 33411706 ~ 33473890 (+) False LOC110535592
XM_036935320.1 mRNA upstream 99812 33411707 ~ 33473890 (+) False LOC110535592
XM_036935322.1 mRNA upstream 99812 33411707 ~ 33473890 (+) False LOC110535592
XM_036935324.1 mRNA upstream 99812 33422106 ~ 33473890 (+) False LOC110535592
XR_002475280.2 mRNA downstream 62760 33644833 ~ 33690458 (+) False LOC110535596
XR_002475279.2 mRNA downstream 62760 33644833 ~ 33690571 (+) False LOC110535596
XM_036935330.1 mRNA downstream 326643 33908716 ~ 34150393 (+) False LOC110535601
XM_036935328.1 mRNA downstream 326643 33908716 ~ 34154878 (+) False LOC110535601
XM_036935331.1 mRNA downstream 326643 33908716 ~ 34154878 (+) False LOC110535601
TU1103419 other upstream 99835 33458361 ~ 33473867 (+) False LOC110535592
TU1103424 other upstream 99835 33458539 ~ 33473867 (+) True LOC110535592
TU1103506 other upstream 188175 33384043 ~ 33385527 (+) True LOC110536614
TU1100642 other upstream 2752450 30818838 ~ 30821252 (+) True G965838
TU1096773 other upstream 5323790 28249327 ~ 28249912 (+) True LOC110535556
TU1104418 other downstream 20974 33603047 ~ 33603674 (+) True G969455
TU1104419 other downstream 22440 33604513 ~ 33604810 (+) True G969456
TU1104738 other downstream 212302 33794375 ~ 33795061 (+) True G969752
TU1105066 other downstream 581743 34163816 ~ 34170987 (+) True G970054
TU1105305 other downstream 597630 34179703 ~ 34180048 (+) True G970283

Expression Profile