RNA id: XM_021623094.2


Basic Information

Item Value
RNA id XM_021623094.2
length 5588
RNA type mRNA
GC content 0.44
exon number 4
gene id LOC110537220
representative True

Chromosome Information

Item Value
chromosome id NC_048576.1
NCBI id CM023230.2
chromosome length 102853256
location 22693699 ~ 22756982 (-)
genome version USDA_OmykA_1.1_2020_rainbow_trout_Genome
species rainbow trout
(Oncorhynchus mykiss)

Sequence

TAGCCGACTGTCAGTGAAATCTTAATGAGATGGCGCACGGAGATATGAGGATTATGTTTCTCTTTCTTAAAAAAAATCCATTGCGTTACTTGGGTTCTCtttgttctctgtcacactccATGGATTACATTCTAAAAAGGATTATATAACAATGGCTGTACTCGAGAACCGTGAGTGGGGTTGGATTGTGAATATATTTTGGCTGTTGCTTTGTTTTCGGGGTTCTGTTTCTAGACAAATTACCTATTCAATTTCCGAGGAGGTTAAACCGGGGACATTTGTTGGGAATTTGGCTAAGGATCTAAATCTAAAAGTGATTGAACTGGAAGCACGCAGGATTCAGATTGAATCTGGATCATATAAGAAACATTTTGAGGTAAATTTGAAAACTGGCGTTCTCTTCGTTAGCGAAGCAATAGACCGAGAGAAGCTTTGTCCCAACAGCCTTGTTTGTACTGAAAGCTTGGAGGTTATTGTTAATAATCCGTTACGAATGTACAATGTTGAAGTAAATATACTAGACATAAACGACAACGCACCACAATTTCCTGTGAAATCACAGATTATTCGTATTTCTGAGCACACTTCACCTGGAGCAAGATTTCCTCTGTCTACAGCTGACGATATGGATGTAGGGAGCAACACTATTGACGCATATAAACTCTCCACAAATGCCTTTTTCAATCTAGACGTTCATACTGAGGCTGTTAGTGGTCCATCAGCAGAGTTAATTCTAAATCAAGCTTTAGACCGAGAGAAACAGCCTGCGATCAAGCTAACACTGACTGCTATTGATGGAGGAAAGCCTCCCAGATCAGGGAGCACAGAAATCATTGTCAACATACTCGATGCAAACGATAATGCGCCAGTGTTTTCCAAAGCCCTGTATAAGGCAAAAGTCTTAGAGACTGCGCCAATTGGCACTGCTTTTCTAAGGCTTAATGCAACAGACCTAGACGAAGGCTTGAACGGTGAAATAATGTATTTGTTCAGCAAACAAGGACAAAAGGGGGGTTATGGTACATTTGCAATCAATCAGAGCAATGGGGAAATGACAGTAGCGGGACCTTTAGATTATGAGGTGACCAGTGCGTATGAGATTCGTGTAGAAGCTCAGGACCGAGGCCACTCACCTTTGGCCTCACATTGCAAAGTGTTGGTAGAGGTAGTTGACGTAAACGATAATGCCCCGGACATCAAACTCTCCTCGCTTttggagagtgtgagagaggacGCAAAGAAGGGTACGGCAATTGCGCTAATCACGATTATTGATAAGGATAGCGGTAAAAACGGGAATGTGCATTGTACCATATCTGGTGTCTCGCCGTTTCTATTGGAGTCATCTCAGGGTAAATACTACTCCATGGTCCTTGGAGAAACGCTGGACAGGGAAATCAACTCTCAGTATAATGTCACAATCATAGCCAGAGATGAAGGGACCCCTCCCCTGTCCAGTACTAGCATTATTACTGTCCATGTTTCTGATGTCAATGACAATACGCCACGCTTTCCAGAACCCACTGTTAACGTGTTCTTAAAAGAAAATAGTCCGGCAAGATCTGTGATATCTTCTGTGACTGCGCTGGATCCAGATTCAAAAGCAAACGCTCAGATAACATATAATTTACTAGAGCCCAGAAATAGGCCTACAGCTTCGCAGACACCTGTCAATGTGAATTATGCCACAGGTGAGATATATAGCATGCAGTCAGTGAACTATGAAGAAGTGAAAATGTTCCAGTTCCAAGTTCAGGCCACAGATTCTGGTGTTCCTCCACTAAGCAGCAACGTCACTGTCAACGTTTTTATCCTTGATGAGAATGACAACAGTCCTGTGATTCTCCCGCCCTATTCTGACCACGGCTCCGTTAATTCTGAGAAGATTCCTTATTCTGCTGAAGCGGGATACTTTGTGGCCAAGATCAGGGCTGTAGACGCCGACTCTGGTTATAATGCGCTGCTTTCTTATCACATCTCTGAACCAAAGGGGACCAATCTATTCAGAATAGGAACCAACAACGGAGAAATACGGACTAAGAGACGCATGAGTGACAATGACTTAAAATCTCACCCGTTGGTCATTCTGGTGTCTGATAATGGAGAACCTTCCCTGTCTGCGACTGTGTCTATTGATGTTATGGTCGTTGAAAGGTCAGGTGACATGCAGACAACTTTCAAACAACTGCCTGTAAAGGAGGATAGTTTCTCAGATTTAAATCTGTATCTGCTCGTCGCCATTGTGTCAGTATCAGTGATATTTCTACTGATACTCATCAGTTTAATAGTTGTAAAATGCCACAGGACAGACGGCAGTTTCAACAGGTGCAGCGCCCCAATGATCACCACCCACCCTGACGGGAGCTGGTCTTACTCCAAATCTACTCAGCAGTATGACGTATGTTTCAGCTCTGACACACTGAAGAGTGACGTAGTAGTTTTCCCCACGCCGTTTCCACCTGCTGATGGCGAACTGATCAGTATTAATGGAGGGGACACTTTGCAAAGGACACAGACGCTTCCCAACGCAGATAAGccGAAGGCCCCAAATGCTGACTGGCAATACTCCACTTCTCTGAGGACAGGGATGCAGAGCTCGGTCCATATGGAGGAGTCGTCAGTGATGCAGGGAGCACAGGGGATGCTGGTCCAGAACTGGCCCACAGTGTCCAGTGCTGCAGATGGTGAGGGGGGTGAGCTGTCCCCTCCGGTTGGAGCTGGCATCGACAGTAACAGCTGGCACTTCCGTTACGGGCCTGGCCCTGGCTACGGCCCCCCTCAGGTCCTGAAGCCTGGAGACATTCCCCCTGAAGCCTTCATCATCCCCGGCTCCCCCGCCATCATCTCAATCCGCCAGGGCCCGGGAGGAGAGGATGACAAGAGTGATTTCATTTCCTTCGGCAAGAAGGAGGAagccaagaagaagaaaaagaaaaagaaggagaagaaagaCAAGAAAGACAAGGGGAAGGAGGATGTGGACGagtagaggagaaaggggagataTGAAAACAGAGCTACCAACTAAAGTCCAAATAACAGCTGCAAGACAAAAAGCCAAATGTATATTTTCGAATCAGGAGAGTCTCCATGTGTTGTGTTTGCATAGTTAAGTCTGCCCAGCCAAGTCCCCATTAGCAGAGGCCTATCTCTATAAAGACATGTAAGCAGCCAATAGTAGCCTCTGCCAGATTGGCCCTCTGAAGCTTCCATACCTCTGGCTATAAAACactatttttaaatatatttaataggCTCTCATTTACCAGACATTTGCTGAAAATTCCACAAAAATCTTTGATTAGAATAACCTAAAGATGATAATGCAATCAACTACCGATACCCAGACGTTTCATGTATAAAATGCCATACAGTATGTGAGAGAAACCTCACATACCCTATTAATGGTGGTGCTATAGTCCTGCCAGCCCACCTCCCCAACCTTGCTTGAAATGGGACCCTTCTCCCTGGCCCTTCTGGCCCCTTGTTGGCATCTCTGTCTTTACTCTGCCCCTtgcctcctctgctctcctgattggagggggggaggaggagctcAATCTGACAAAGAGTGACACAGAGGCTCTCATCTACAGTAAGATGGAAGCCTTGTGCAAAAAAATGAGTCGGTTTTTTTTCGACAAAATATAAAAAAGAAAAAGTGGTGCAAACAAGACACCTGAcgtgtatatgtacagtacagtgagctgTGTGAGATTGGAATGTGTTGAGATTAGTGCTGGCTGGGATTGAAGGCTGGATTAGGCTGACCGTGTTCTGGATTAGGCTGCCCGTGGGTTGTTTCATGCCTGGTACTGTTGGCACTGTTGGCAGCATAGGGCAGGGGCTAAAGACCTTGCCCCGCCTTCTCATCTAGAACACAAAATAGGCCAGTGGGACCTTGGACCCACAGTCTGTGCAGCACACAaccactgtaacacacacacacacacacactagacagtCTGGGGGGGACATGCACACACCTCTCAGGATAGTGTACAGCTCTAACTCAGCCAAAAGACTGGCCTATTTCAGTGGCCTCTTTTCTATGGGAGTGTAATATATGACAGCCTGTTTCTGTTCAagcctgatcccccccccccccccccccccccccagcttctGTCAGTCAATGCAATGTTCAATAGTCAATGTTCAGTAGTTCTTAAAGCCCCGCCCCCTTACCTTTCCCGCTTTGGTGCTAGTAGGATTCTCTCGCACGCCTCGTCTGTTGACCCTCGACTCCTCCGTCCTCCGATCACCATGTTCAGAAGGCCTCTCTCAAAGACACTCTTAACTTCAGATAACTTGTTCCTCTGCAAACACAGCAACAGAATGAACCTGtgtaacacactcacacactttctgTTAGCTTTAACCAAGCCTTGCTACTGAAATATCAACATTCCTAGCACTGTTTTGGGGACAAGTTGCCGTCTCTTCCACCAGTTACATACAGGGTAGTGGGGCAAACATAAGGAGCTTAGCAGAAATATGGACGGGCTTCCTTCTGTCcagatggagagaaaaagagggatggaaggatgtagAGGCAAGGAGAGAGAAGTGGATTTGTTGTGATGGGCACTCCAGTCCACAGACATTCCCTGGAGAGCTTTGTTGCTGTGTTAAACTCTACTCATATTTTGTGATGAAAAGGAAGCATcaacagcattgagtcttctccAGAATAGAGCATCCCCAGAATGAACTCAATATGTGTGAGGGCTAATTCCACAGCATCTCCTACtcacctctctgtttcctcttccTGGCTGATATCTGACCAATCAGAGGGGACACAGGGATGATGCTAGCGCTGCTATTGGACTGAATCCCCCCCATATTAAACATGTGCTCCCCCTTCAGGTGTGAATCTGTGCTGTCAGATCACTAAGTGGCTGTTTGCATGTTATAAGcaaaggaaatatatatatagatcgATATGTTTCATTTCCTTCAACCATTTATCACAAACTCTGCTAAAATATGTATACATACTCACTCTCGAAAACACAcatgaacacaaatacacacatactaTGTATTCCTAGACAAACAGAAATCACTTGTTTTTATTCTGTTGAAGTTCAATTAAAATAACCTTCTAAATATAAGTAATGCTGTAGATATGCTATGAAATGCTATTTTTGTTCATGCCCTTATGATTTTTGAGGATTACAAAATGAGTCCTTATACCTTGTGTTAAGCTATGAACTGATGATCAAGGAAACACTAACGTAATACTGAATCATTTACTCACCATCAATATATATCCCGAACACCTTTGAAAATGTTTTTATAatgttgagaaaaaaaaaacgaacaaaattGTCACAAAAAAAAGAAGCTAATCTTGATGTACTCTCTGCTTGTGTGAAGTGAATGTTTCCTGAGTCATCTGGTGCCTGTATGGCACAAAGCAGTCGACTGCGACATTGCAGATCTGTTAACCTTTTTGTACACCTGCTCATCAATGTAATGGTGATATAGTGATTTGTCTTCTTTATTATTTGATGGATCTGGTATCGTGTTTTGTTTATAAatcacaaataaaatgttatttcttAAATATTGGGAAAAAA

Function

GO:

id name namespace
GO:0007156 homophilic cell adhesion via plasma membrane adhesion molecules biological_process
GO:0005886 plasma membrane cellular_component
GO:0016021 integral component of membrane cellular_component
GO:0005509 calcium ion binding molecular_function

KEGG:

id description
K16493 PCDHA; protocadherin alpha

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TU1196241 lncRNA downstream 3705 22689756 ~ 22689994 (-) True G1049723
TU1196231 lncRNA downstream 17519 22675442 ~ 22676180 (-) True G1049713
TU1196228 lncRNA downstream 20637 22672764 ~ 22673062 (-) True G1049711
TU1196181 lncRNA downstream 126789 22561152 ~ 22566910 (-) True G1049666
TU1196172 lncRNA downstream 140129 22553367 ~ 22553570 (-) True G1049658
TU1196271 lncRNA upstream 3170 22760152 ~ 22760393 (-) True G1049753
TU1196709 lncRNA upstream 64059 22821041 ~ 22821486 (-) True G1050155
TU1196710 lncRNA upstream 64534 22821516 ~ 22821718 (-) True G1050156
TU1196711 lncRNA upstream 65234 22822216 ~ 22822439 (-) True G1050157
TU1196722 lncRNA upstream 71263 22828245 ~ 22829107 (-) False G1050165
LOC110537219 mRNA downstream 23021 22665662 ~ 22670678 (-) True LOC110537219
XM_036937230.1 mRNA downstream 28081 22663283 ~ 22665618 (-) True LOC118937647
LOC118937813 mRNA downstream 30719 22659615 ~ 22662980 (-) True LOC118937813
LOC118937649 mRNA downstream 52480 22638989 ~ 22641219 (-) True LOC118937649
LOC118937648 mRNA downstream 67792 22624544 ~ 22625907 (-) True LOC118937648
XM_021623102.2 mRNA upstream 12901 22769883 ~ 22779483 (-) False LOC110537223
XM_021623103.2 mRNA upstream 12901 22769883 ~ 22779485 (-) False LOC110537223
XR_002475588.2 mRNA upstream 12901 22769883 ~ 22779486 (-) True LOC110537223
LOC118937814 mRNA upstream 35126 22792108 ~ 22796733 (-) True LOC118937814
XM_021623104.2 mRNA upstream 66906 22823888 ~ 22859632 (-) False LOC110537224
TU1196240 other downstream 4102 22689161 ~ 22689597 (-) True G1049722
TU1196151 other downstream 52100 22607861 ~ 22641599 (-) False LOC110536820
TU1196153 other downstream 52100 22607861 ~ 22641599 (-) True LOC110536820
TU1196162 other downstream 147042 22544178 ~ 22546657 (-) True LOC110537218
TU1195860 other downstream 353190 22337086 ~ 22340509 (-) True G1049389
TU1197008 other upstream 486655 23243637 ~ 23244270 (-) True G1050429
TU1198735 other upstream 1797715 24554697 ~ 24555000 (-) True G1052040
TU1198799 other upstream 1847298 24604280 ~ 24607820 (-) True LOC118936414
TU1201112 other upstream 2866897 25623879 ~ 25624637 (-) True G1054211
TU1201136 other upstream 2900287 25657269 ~ 25659005 (-) True G1054232

Expression Profile