RNA id: TU90416


Basic Information

Item Value
RNA id TU90416
length 2315
lncRNA type inter_gene
GC content 0.35
exon number 1
gene id G72341
representative True

Chromosome Information

Item Value
chromosome id CM030128.1
NCBI id CM030128.1
chromosome length 42883965
location 28918976 ~ 28921290 (+)
genome version AmiCal1_2021_bowfin_Genome
species bowfin
(Amia calva)

Sequence

TAGACTGCCTTCACTAGAACAGGATGTTGTGGTGAGCATTCCTGCCCCTACTGTCTTGAAGAAGAGTTTAAAAACTTCAGAGGCTGGAAACAGTTGCCACGTTACCAAGctgtagaaaaaagaaaagtgaaaacttGTGCAGTATTTAAAGATTCTTCCTGCTGTATTGTAACTAAGTTTATCTGATACTTGTGGTATGGAAAGCCTCTGATCACGAACATAGCGCAGCGCTTCTTTGTTCCTGTCGGAAAAGGCTGATCAGATAAAACCTAAGGTGGGGTGAGAAACTTTAAACAGGAAGTCGTTCTGCTCATCGAGGTGACACGACGTGGAGCAGATAAAGGCAGACCTGTGTTACTCTTTTTTTCCTATCCTTACACAATTATGCTTTTAACTTAAGTAAACATTCTGATGTTTCATTTTAAGGCTTGAATTGTGCCACAGTTCTACAGTTCCTCCAATGTTTGGGGAAATGCACGGGGTGAGGGGGTGGACAAGTGTGAAGGCAACGTGATCTAAAAAGAGGGTACCATGTTGAGCTGTTGGCTACGTGTTTCGTTTGACCACTACTGAAGgattttttgcttaattttattttgatttttctaCTTTTATGACCTCCCCGCCACtgctaccaccaccaccacccccgcTGTGACCTCCACATCCCAGCCAAGCCAGTTACAGCATGTATCCCACTGCTCTTCAGTACAATCCTTGAACACGTCTTACTTCAAagagttataaataaaatgttgtatgtatatatagttgcTCCTCACCAAATTCTTGCTTGtccttatttttgttgtgtacGGTATGTAAATATGCGGACCCAAGAACTGTTATGATCAAAAAAcgaaacaagaaaagaaaaaaagaaagaaaaaaaagattcaggGCAAATAATTCTGTTTATTCAAAATGTAGATGAGCTTTTTCAAGCCATATAGTTCAATCTTACTGTACAGTAGGTGCCAGCTATATTATTGTAACAATAACTAGTAATGTATAGTGTATCTATAGTTTGGAGTGCCTTTGCttccattattttgttattttttttcctttcctctgttattttcccctttttaacCCCTTGAGTGCTGTTAAGTGCCAGTCCATTTATCCTCTAAAGTCCAACTTGCAATTTCAGTATGCGTAGTTACTTTAACCAGCAgtattttagaaaagaaaaaatagccAGTTTTAAAGTAAGGACTTTGCAATGTATCTCCATTGTGTTGTATTCTAGACTGTTTAATCTTTTTGCTGAATGGAAACCTATAGTTTTCGTCCAATGTTCCTgttggtgtatttttttaatattgattttaatccattttaagtgattttattcattcaattgCAGATTCGTGATACTTTTAAGACGTCAATGTTTTAGCTGGTATCCTTCTCAGTAGCGTTGCCTCaggttattttgtgtttattttttttgtttattttttaaacatcaaaatagTATCAAAGCACATGgtatacaatacattttgcctatggtattggttttcttttctgaagGGTTAAGAAGCAATATTCATCTTTTAGCAGTTGACTTAAGGCAGGTCTGTCTACAGTGTTACCTAAGTGTCTGGTTGTTCAACACCGGAGTGTTAAAATGCCGATGTCTGtcacttctgttttctgtcccATTACCAaagtgaattaataataatgtcactGTAACAGGAGGAGGCAATAAAGATTACTCTAGGATTTACTTTTTGTGAATGCTTTCTGATATGCATTCAGCAGCACTCAATGGGCTAATTACCATGTAGCTCCCCtcttgtgaaatatatatatatatatatatatatatatatatatatatatataagcttgCTTGTAATATTTGCACTCATAGATGTGTTGCTATTGGATCACCTGGCCTGTAAAACAAGTGTGACCACTTCTTGTGtctgaagtaaaataattaaaaggaaaaaagaaaaaaaaaaatggaaaggacTGTGGGTTATATACAGACTATCGCATACacttgtggggaaaaaaaaaaaaagctgtcttgatttaaaaaataaacaataaaaaacaaaaaaaaagacctgtATAACATTACTACTTGAATGCCTCTGTTTGTgactgaacatttttattttattttaagtataaacttttttttttttttctgtgaaagtATGCTAAATGTTTCCCACCTCCCTGTAAATAAGTCCGTTTTGTTCTTCAGTGTGACTTGGTTCAAAAATAGTTAACTGGTACTGtaatttgcattaaataaagAGTAGGTTAGCCTGGAAATGAAGAAAGTG

Function

GO:

id name namespace
GO:0046530 photoreceptor cell differentiation biological_process

KEGG: NA

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TU90400 lncRNA upstream 81066 28836282 ~ 28837910 (+) False AMCG00014729
TU90404 lncRNA upstream 87001 28831756 ~ 28831975 (+) True G72329
TU90338 lncRNA upstream 340243 28526788 ~ 28578733 (+) True G72273
TU90255 lncRNA upstream 577259 28337291 ~ 28341717 (+) True G72208
TU90212 lncRNA upstream 618163 28297669 ~ 28300813 (+) True G72173
TU90428 lncRNA downstream 59832 28981122 ~ 28985576 (+) True G72353
TU90429 lncRNA downstream 68317 28989607 ~ 28991299 (+) True G72354
TU90496 lncRNA downstream 215839 29137129 ~ 29137353 (+) True G72409
TU90507 lncRNA downstream 235735 29157025 ~ 29160425 (+) True G72415
TU90518 lncRNA downstream 270681 29191971 ~ 29192278 (+) True G72426
AMCG00014728 mRNA upstream 2342 28905901 ~ 28916634 (+) True AMCG00014728
AMCG00014727 mRNA upstream 28008 28881917 ~ 28890968 (+) True AMCG00014727
AMCG00014729 mRNA upstream 81067 28797049 ~ 28837909 (+) True AMCG00014729
AMCG00014725 mRNA upstream 139686 28767435 ~ 28779290 (+) True AMCG00014725
AMCG00014726 mRNA upstream 152886 28695811 ~ 28766090 (+) True AMCG00014726
AMCG00014734 mRNA downstream 174839 29096129 ~ 29110638 (+) True AMCG00014734
AMCG00014733 mRNA downstream 199661 29120951 ~ 29129042 (+) True AMCG00014733
AMCG00014739 mRNA downstream 326585 29247875 ~ 29256354 (+) False AMCG00014739
AMCG00014738 mRNA downstream 348348 29269638 ~ 29279149 (+) True AMCG00014738
AMCG00014737 mRNA downstream 386650 29307940 ~ 29321592 (+) True AMCG00014737
TU90214 other upstream 614903 28302373 ~ 28304073 (+) True G72175
TU90175 other upstream 1039176 27868703 ~ 27879800 (+) True AMCG00014703
TU90165 other upstream 1077105 27835503 ~ 27841871 (+) True AMCG00014704
TU89430 other upstream 6063330 22855342 ~ 22855646 (+) True G71525
TU88725 other upstream 10644616 18271854 ~ 18274360 (+) True G71004
TU90740 other downstream 930160 29851450 ~ 29851821 (+) True G72605
TU90928 other downstream 1843061 30764351 ~ 30805741 (+) False AMCG00014777
TU90965 other downstream 2056926 30978216 ~ 30978825 (+) True G72785
TU90966 other downstream 2058280 30979570 ~ 30980252 (+) True G72786
TU90967 other downstream 2068773 30990063 ~ 30996363 (+) True G72787

Expression Profile


Homologous

species RNA id representative length rna type GC content exon number chromosome id location
rainbow trout (Oncorhynchus mykiss) TU104526 True 219 lncRNA 0.49 1 NC_048565.1 84121792 ~ 84122010 (-)
rainbow trout (Oncorhynchus mykiss) TU223812 True 424 lncRNA 0.37 1 NC_048566.1 86244259 ~ 86244682 (-)
rainbow trout (Oncorhynchus mykiss) TU2051748 False 2079 lncRNA 0.40 2 NC_048586.1 25344679 ~ 25346795 (+)
striped catfish (Pangasianodon hypophthalmus) TU104526 True 2067 lncRNA 0.37 1 NC_047599.1 24727018 ~ 24729084 (+)
mexican tetra (Astyanax mexicanus) TU223812 False 1364 lncRNA 0.36 3 NC_035915.1 5872241 ~ 5931151 (+)