RNA id: XM_034303683.1


Basic Information

Item Value
RNA id XM_034303683.1
length 4120
RNA type mRNA
GC content 0.55
exon number 29
gene id copa
representative True

Chromosome Information

Item Value
chromosome id NC_047598.1
NCBI id CM018544.1
chromosome length 33267568
location 26770582 ~ 26786518 (-)
genome version GENO_Phyp_1.0_2019_striped_catfish_Genome
species striped catfish
(Pangasianodon hypophthalmus)

Sequence

aaactttatttgacTCCGCGCAGGAAACACTTTATTTCGGTAGACGTGTCAGCTGAGGAAGTGCAGAAgccgcgagagagagagagagaaaagagaagaattattaattatagaAATCACTTCTGCACACCAGCTATCTTTAGATTGGATTGTTGGATTAGACACGCAGAAACGCGGAGATGTTAACCAAATTCGAGACCAAATCAGCTCGAGTGAAAGgGCTGAGTTTCCACCCGAAGCGGCCGTGGATCCTGGCCAGTCTTCACAACGGCGTCATCCAGCTGTGGGATTATCGCATGTGCACCCTCATCGATAAGTTCGACGAGCATGACGGTCCGGTGAGAGGGATCGACTTCCACAAGCAGCAGCCTCTGTTTGTCTCGGGTGGAGACGATTACAAAATCAAGgtatggaACTACAAGCTCCGTCGCTGTCTCTTCACCCTGCTTGGACACCTGGACTACATCCGCACCACCTTCTTCCACCATGAGTACCCATGGATCCTGAGCGCTTCAGATGATCAGACCATCCGTCTGTGGAACTGGCAGTCCAGGACCTGTGTCTGtGTTCTGACAGGTCATAACCACTACGTGATGTGTGCTCAGTTCCACCCTTCGGAGGACCTGGTGGTGTCGGCCAGCCTGGATCAGACCGTGCGGGTGTGGGATATCTCCGGTTTGAGGAAGAAGAACCTGTCTCCGGGCGCTGTGGAAACAGAAGTGCGTGGCATCACAGGGGTGGATCTGTTTGGAGCATCAGATGCTGTGGTTAAACACGTGCTGGAGGGTCATGATCGAGGGGTGAACTGGGCAGCGTTCCATCCCAGCATGCCTTTGATTGTGAGCGGAGCTGATGACCGTCAGGTGAAGATCTGGAGGATGAAcgAGTCGAAGGCGTGGGAGCTGGACACCTGTAGGGGGCACTACAACAATGTGTCCTGCGCTGTCTTCCACCCACGCCAGGAGCTCATCCTGTCCAACTCCGAGGATAAGAGCATCCGAGTGTGGGACATGTCCAAGAGGACCGGTGTCCAGACCTTCCGCAGGGACCACGACCGCTTCTGGGTGCTCGGAGCTCATCCCAATCTCAACCTGTTTGCTGCtggtcatGACAGCGGGATGTTGGTGTTTAAGTTGGAGCGTGAGCGTCCTGCCTACGCTGTGTACGGGAACATGCTGTACTACGTCAAGGACCGCTTCCTGCGTCAGCTCGACTTCAACAGCAGCAAAGACACGGCTGTCATGCAGCtacgcagCGGCTCTAAGTTCCCTGTCTTCAGCATGTCGTACAATCCAGCGGAGAACGCAGTGCTGCTGTGTACGAGAGCCACTAATCTGGAGAACAGCACGTATGATCTGTATTCCATCCCTCGAGAGAGCGACTCGCAGAACCCTGATGctccaGAGGGAAAGCGCTCATCAGGACTCACGGCAGTGTGGGTGGCCCGGAATCGCTTCGCTGTGTTGGACCGCATGCACTCGCTGCTGATAAAGAACCTGAAGAATGAGATTGTGAAGAAGGTTCAGGTGCCGAGCTGTGAGGAGATCTTCTACGCAGGGACGGGTTCTCTGCTGCTGAGGGACGCAGACGGAGTCACGCTGTTCGACGTGCAGCAGAAACGCTCACTCGCTACTGTCAAAATTGCCAAAGTCAAATACGTGGTGTGGAGCGCAGACACCAGCCACGTCGCCCTGCTGGCCAAACACGCCATTATGATCTGCAACAGGAAGTTAGAGAGTCTGTGTAACATCCATGAGAACATCCGTGTGAAGAGCGGCGCATGGGATGAGAGCGGCGTGTTTATTTACACCACCTCCAACCATATCAAATACGCCCTCACCTCAGGTGATCATGGTATAATTCGCACCCTGGACCTGCCCATTTACGTGACCCGTGTGAGGGGGAACAGTGTGTACTGTCTGGATCGGGAGTGCAGACCCCGTGTCCTCAACATTGACCCGACCGAGTACCGCTTCAAACTTGCACTTGTTAACCGCAAATATGACGAGGTGCTGCACATGGTGCGTAACGCTAAGCTGGTGGGTCAGTCCATCATTGCGTACCTGCAGAAGAAGGGCTACCCGGAGGTGGCGCTACACTTCGTCAAGGATGAGAAAACCCGCTTCAGTCTGGCGCTGGAGTGCGGAAACATCGAGGTGGCGCTGGAGGCGGCGAAGGCTCTGGACGAGCGGAGCTGCTGGGAACGTCTGGGCGAGGCGGCTCTGCTGCAGGGTCATCACCAGGTCGTGGAGATGTGCTACCAGAGAACTAAGAACTTTGATAAGCTTACCTTCCTTTACCTGATCACAGGGAACCTGGCCAAGCTCCGCAAGATGATGAAGATCGctgagaTCAGGAAGGACATGAGTGGACATTATCAGGGTGCTCTGTATCTGGGAGACGTCAGTGAGAGAGTGCGCATCCTCAAGAACTGTGGACAGAaGTCTCTGGCGTACCTGACTGCAGCGACACATGGCATGGATGAGGAGGCTGAGGCGCTCAAAGAGACCTTCGACCTGGAGAAGGAGATgatcccCGAGGTAGACCCAAACGCTGAGTTGTTGCAGCCTCCTCCTCCCATCAACCCTCTGGACACAAACTGGCCCTTGCTCACTGTCTCTAAGGGCTTCTTCGAGGGAGCCATCGCTGCTAAAGGAAGAGCAGGTCAGATGGTGGCCGATCTGGACATGGATGCTCCTGGAGGAGAAGGTTGGGGTGAAGATGCAGAGCTCCACCTGGATGAAGATGGGTTTATGGACGCTCAGGAGGGTCTGGGTGAGGAAGGAGCGCTggggaaggaggaaggaggaggatgGGAGGTCGAGGAGGATCTGGACCTTCCACCTGAACTGGATGTGCCATCTGGTGCTGGAGGCGGTGCTGAAGGAGAAGGCTTCTTTGTCCCACCCACCAAAGGTATTAGCCCTGCCCAGATGTGGTGTAACAACTCACAGTTACCGGTTGACCACATCCTCGCCGGATCCTTCGAGACAGCCATGAGGCTGCTGCACGATCAGGTGGGCGTGGTATGCTTCGAGCCATTGAAGCCCCTCTTCATGCAGGCGTTCTCGCGGGGGCGCGTGTCCTACGTGGGGCTTCCATCTCTGCCCTGTCTCTTCTCCCATCCTCTGAGGGATGGGGGCACGACCGAGGGCAGGAGACAGCGAGACGGGCAAAAGGGCGGCGTCCCGGCAGTGGGGCTGCACCTGCGTGACCTCATCGCCCGCCTGCAGCAGTGCTACCAGATGACCACCGCAGGGCGCTTTGACGAGGCCGTCGACAAGTTCAGGAGCATCTTGCTGTCCGTCCCTCTGCTGGTGCTCGATAACAAACAGGAGATCGCTGAGgcccAGCAGTTGATCACTATCTGTAAAGAGTACATTGTGGGTCTCACCATGGAGACGGAGAGGAAGAAGCTTCCTAAAGAGACCCTGGAGCAACAGAAGAGGCAGTGTGAGaTGGCGGCATACTTCACACACTGTAACCTGCAGCCGGTCCACATGGTGCTGGTGTTGCGCACGGCGCTCAATCTCTTCTTCAAACTGAAAAACTTTAAGACGGCCGCAGGGTTCGCACGCCGCCTGCTCGAGCTCGGACCCAAACCTGAGGTGGCACAGCAGACGCGCAAGATCCTGGCAGCATGCGAGAAGAACCTGACTGATGCCCACCAGCTCAACTACGACCCCCACAACCCCTTCGACCTGTGCGCCGCCTCCTTCACCCCGCTGTACCGAGGACGCCCCGTGGAGAAGTGCCCTCTCTCCGGGGCCTGCTACTGCCCCACCTACAAAGGGCAAGTGTGCAGGGTCACACAGGTGACTGAGATCGGTAAGGACGTGATCGGGCTGCGTGTGAGTCCTCTGCAGTTCCGCTAAAGgagcaccaacacacacacacacacacacacacacacacacacatctatagaTAAAGAATTAAAACTAACTCTATATAGATAATAAAAACGTACAATATATAGTGTAACTTAAAGGCTGTGATCTTCTCACTGtcgtgtgtgtattgtgtttctGCTTGCTtaatgtatctctctctctcactcacacacacaccacttctgTGTTTAACCcctgaaaaactgaaataaacatccTCCAAGCTG

Function

GO:

id name namespace
GO:0006886 intracellular protein transport biological_process
GO:0016192 vesicle-mediated transport biological_process
GO:0030903 notochord development biological_process
GO:0030126 COPI vesicle coat cellular_component
GO:0005198 structural molecule activity molecular_function

KEGG:

id description
K05236 COPA, RET1; coatomer subunit alpha

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TU84994 lncRNA downstream 73485 26696893 ~ 26697097 (-) True G71707
TU84992 lncRNA downstream 74261 26694946 ~ 26696321 (-) True G71705
TU84990 lncRNA downstream 80188 26689070 ~ 26690394 (-) True G71704
TU84986 lncRNA downstream 98737 26671641 ~ 26671845 (-) True G71700
TU84985 lncRNA downstream 99046 26671260 ~ 26671536 (-) True G71699
TU85024 lncRNA upstream 60828 26847346 ~ 26859455 (-) True G71734
TU85022 lncRNA upstream 66749 26853267 ~ 26856672 (-) True G71732
TU85065 lncRNA upstream 108163 26894681 ~ 26895564 (-) True G71764
TU85066 lncRNA upstream 148472 26934990 ~ 26935197 (-) True G71765
TU85140 lncRNA upstream 244799 27031317 ~ 27036462 (-) True G71815
XM_026936093.2 mRNA downstream 58278 26708082 ~ 26712304 (-) True slitrk3b
XM_026936649.2 mRNA downstream 91734 26672747 ~ 26678848 (-) True ccnl1b
XM_026935989.2 mRNA downstream 174592 26578794 ~ 26595990 (-) False sppl2
XM_026935988.2 mRNA downstream 174592 26578795 ~ 26595990 (-) True sppl2
XM_026935883.2 mRNA downstream 317751 26446458 ~ 26452831 (-) True si:dkeyp-66d1.7
XM_026935911.2 mRNA upstream 569 26787087 ~ 26790914 (-) True pex19
XM_034304027.1 mRNA upstream 5505 26792023 ~ 26805367 (-) False map1sb
XM_026936912.2 mRNA upstream 5505 26792023 ~ 26805367 (-) True map1sb
XM_026937255.2 mRNA upstream 22138 26808656 ~ 26810250 (-) True LOC113540659
XM_034303851.1 mRNA upstream 48507 26835025 ~ 26835888 (-) True LOC117597119
TU84853 other downstream 219552 26472080 ~ 26551030 (-) False G71596
TU84852 other downstream 219552 26537102 ~ 26551030 (-) False G71596
TU84653 other downstream 394494 26373758 ~ 26376088 (-) False ltb4r2b
TU83344 other downstream 2465656 24304374 ~ 24304926 (-) True G70255
XR_003404116.1 other downstream 2733728 24036718 ~ 24036854 (-) True LOC113540746
TU85159 other upstream 310084 27096602 ~ 27100858 (-) True G71832
TU85245 other upstream 417265 27203783 ~ 27204186 (-) True G71909
trnat-ugu_3 other upstream 608839 27395357 ~ 27395429 (-) True trnat-ugu_3
trnat-ugu_4 other upstream 609633 27396151 ~ 27396223 (-) True trnat-ugu_4
XR_003404034.2 other upstream 641902 27428420 ~ 27432678 (-) False LOC113540508

Expression Profile