RNA id: TU81566


Basic Information

Item Value
RNA id TU81566
length 2524
lncRNA type antisense_over
GC content 0.40
exon number 3
gene id G71562
representative True

Chromosome Information

Item Value
chromosome id CI01000012
NCBI id null
chromosome length 13770000
location 5608850 ~ 5611605 (+)
genome version v1_2015/06_NatureGenetics_grasscarp_Genome
species grasscarp
(Ctenopharyngodon idella)

Sequence

CAGAGAAGTAAACTGGAGGTTTATAACATCACAGACAGCTATTTAACACATGACCCATCGCCCAGATCACTCATGATCTCAGAGCGTGGAAGAAAACCTTAAAGTACCATTTTTAAATTCACAGTCACTATTTAGTCTGTGAAACAGACTGCTTCATTATGTGCACAATCACTTATTTACCACAGAAAAAACACAAACATGTACAGAAACACTGACATTTCATGTTGGAAGAAAACTGCACCAATGAACATTAAAACTTTTCATCTAAACTTCCTTTAGTTACTGACTCTTTGGCACAGCTGCATTGCTGTGATTGTTGTAGAATTAATTTTACTTGTGTTAAATACTATAATCTCATTTGATCTCTTCATTTTCTTTCTCAATATAAGGCACTATAAATAAATACAGAACCATAAAAAATTGACACAGACAATAAAGTGTCATCTTCCTCAGGCTAACAAACTGCCCCACACAAGCACAATGATTTCAGGTCTTCTTTAAAGAAATGGAAAAACATTTTTTTGTTCTATTAATAATGTTTTACCCTCAGTGCAAAAACAAACCAACAATTCTTCACCACATTGAGGAAATGTCCTCGAACACCTGCAACTTAACATTTCTTATACATTCAAAAACCAAAATATGAATCCATTTCAAATGAGGAAAAAAAAGAGTTGCAACAAAACAATGTATTAGTAGATGGTAGATTTGAACCTCATATTTATCTTACAAGTCTCCCTTTGTTGACCAGAGAGAGCTAAGACTGTTACTGAAAGCAGCAAATAATGCCTTGTAGTTATGTTTGTACAAATATGTAGCTGTCATGACAGTAGTGCAGATATATAAGGGTTCGCCTCCATCCTTCACTGGTCCGGTTAACCAGCGGAGTGAGGAAAGTTCTGTCTCTAAAGTTCAGTTGATTGATTTCCTCATTGCAGTGGTTAAGATGTATTTTGGCGCCCTCTGCAGGCCAGAGCAGGAACAGTCAAGCTGGTATTTCATGCTGTGATATCAGGCTTCAAGGCCTCCATCTCAGCCTCTTGTTCTTCACTCCGCAGGAGCATCTGCAGCTGTTTGTTGTTGTACTGTCTGCGTTCTTCATCGATGGGATACGTTTTGAAGATGAGGAGCCCCAGAGCTATAAGTAACACAGGAGCAGCCGACACCAACATCTTCAACGTCAGATTCACTGAATCAGACTGAACACAAACTCCCGTCACATAACCTGCAAAGCTTAATGATAGTGTTGATACTCCAAGCGACACTCCAGAGGCAAATTTGGTGAAGAAAACATAGAAGGAGTAGAAAATAGCCTCATGGCCTTGAGAGGTAGGATTCTGGACTTTAAAATCATCTACCACATCTGGAAGCATGGACCTGAAACAGAAGCACCTTTATGTCTGAAATATTGGTCTATATGGGATCAGATGTGTTAAATTATATTAACTCATTAATCTAGGAAACTATCGAAAACTTCATATGACTATTTATTCAGGGAATGTATATAATTTACTCTTGTGACTGAGAGGAGCACATGAAAATAGTTGCACTGCTTAAAGGGACAGTTCACGCAAAAATGAAAATTATCCCATGATGGACCCATTCTCATCTTAGGACAACTCTGATGAACTTTTTTGATCCACTTCAAATGTTGACTACTTTATAATAATCGGCTTCCGGTAATGGCCATACGCAAATTGAGTTATGGCGGAGGAGTGACCTCTGACCCGACGCATGACGCAGGATGTAGGAGTAGTGTAAGCTTAGGTAAGAGTAGACGCCTCTCGTGGTTCAAACAAACAGGGCCGTGCAACAAACTCAAGCTCCTCTTCTCTTATATCGAAATCCTCTGACGTTTCTCTTTAAAAATTCTCATTTTAGACTTCTAATTCATGACCGGTAATTTGTTTTGCTCTATCCTCTGCGCTTCCGCATTCGTCAGTACGTCATGTGTCAGGTCAGAGGTCACTCTTCGACCAGAACTATGGCACGTTCACACAGCAACTTACAGTAGCGTCTGGAACACTGTCTGTATAAAGGTGCAGCGAGAGTCAAGCCCGTATTCTCCTACTAGTAACCGTAGCGACAGTGACCAATGTAATATTAAAGATGGCGACGTCCATAAAACTGAAAAGTCTCATCACTTTTGACATGACAAGAGACCAATTGAACCGCGAGTTTATCCATCAAAACTTCATTAACCAACAGCAGCATGTAAACACTCGCTAGCCGGAGTGTTTAACCGTTGCACTCGCGTGTCACGTCCTTTGTGACGTCTCGCGCATAACACGGCATTTGAATTAGGAAAAGAAACACAAAACTGAGGGGAGCCGGAGAACAGTTACTGGATAACACCTTAAGATGACGCACAGCTTATATTTCTGTCACAGTAAGTTACCGAAACCGAAACCACACACAAAACACCGGCTCTCTTGCACTGTATGACGTGACACACAACGAGTTGTCCAGTCCTGTTCCGTTCACACAGCGCGAAAATTCAGAGAATGCGGTTGTGAGTACTGAA

Function

GO:

id name namespace
GO:0016071 mRNA metabolic process biological_process
GO:0000375 RNA splicing, via transesterification reactions biological_process
GO:0000377 RNA splicing, via transesterification reactions with bulged adenosine as nucleophile biological_process
GO:0006397 mRNA processing biological_process
GO:0000398 mRNA splicing, via spliceosome biological_process
GO:0016607 nuclear speck cellular_component
GO:0005681 spliceosomal complex cellular_component
GO:0005685 U1 snRNP cellular_component

KEGG:

id description
ko03040 Spliceosome

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TU81561 lncRNA upstream 35622 5572817 ~ 5573228 (+) True G71559
TU81549 lncRNA upstream 47417 5550493 ~ 5561433 (+) True G71548
TU81205 lncRNA upstream 197334 5409222 ~ 5411516 (+) True G71225
TU81151 lncRNA upstream 303277 5304404 ~ 5305573 (+) True G71171
TU81524 lncRNA upstream 446417 5161509 ~ 5162433 (+) True G71529
TU81610 lncRNA downstream 25763 5637368 ~ 5637671 (+) True G71599
TU81617 lncRNA downstream 60149 5671754 ~ 5672210 (+) True G71606
TU81618 lncRNA downstream 61437 5673042 ~ 5673257 (+) True G71607
TU81606 lncRNA downstream 127411 5739016 ~ 5739684 (+) True G71595
TU81596 lncRNA downstream 154470 5766075 ~ 5768769 (+) True G71585
CI01000012_05565127_05567009.mRNA mRNA upstream 41620 5564939 ~ 5567230 (+) True CI01000012_05565127_05567009
CI01000012_05551775_05553851.mRNA mRNA upstream 54487 5551683 ~ 5554363 (+) True CI01000012_05551775_05553851
CI01000012_05523886_05527548.mRNA mRNA upstream 80689 5523886 ~ 5528161 (+) True CI01000012_05523886_05527548
CI01000012_05495596_05510317.mRNA mRNA upstream 97878 5495357 ~ 5510972 (+) True CI01000012_05495596_05510317
CI01000012_05425849_05469157.mRNA mRNA upstream 139693 5425849 ~ 5469157 (+) True CI01000012_05425849_05469157
CI01000012_05648602_05650699.mRNA mRNA downstream 36997 5648602 ~ 5651197 (+) True CI01000012_05648602_05650699
CI01000012_05659039_05669397.mRNA mRNA downstream 47434 5659039 ~ 5669584 (+) True CI01000012_05659039_05669397
CI01000012_05708007_05735678.mRNA mRNA downstream 96402 5708007 ~ 5735985 (+) True CI01000012_05708007_05735678
CI01000012_05748899_05754466.mRNA mRNA downstream 137294 5748899 ~ 5755254 (+) True CI01000012_05748899_05754466
CI01000012_05856793_05862577.mRNA mRNA downstream 244711 5856316 ~ 5862642 (+) True CI01000012_05856793_05862577
TU81545 other upstream 47417 5550493 ~ 5561433 (+) False G71548
TU81201 other upstream 68394 5538525 ~ 5540456 (+) True G71221
TU81198 other upstream 70466 5535852 ~ 5538384 (+) True G71218
TU81179 other upstream 192065 5413250 ~ 5416785 (+) True G71199
TU81132 other upstream 427880 5176895 ~ 5180970 (+) True CI01000012_05177587_05180517
TU81634 other downstream 201912 5813517 ~ 5816605 (+) False G71623
TU81687 other downstream 311561 5923166 ~ 5924305 (+) True CI01000012_05923216_05928055
TU83614 other downstream 2194498 7806103 ~ 7807855 (+) True CI01000012_07806089_07811902
TU83914 other downstream 2755201 8366806 ~ 8367627 (+) False G73578
TU83912 other downstream 2755399 8367004 ~ 8367627 (+) False G73578

Expression Profile


Homologous

species RNA id representative length rna type GC content exon number chromosome id location
rainbow trout (Oncorhynchus mykiss) TU138576 True 209 lncRNA 0.67 1 NC_048566.1 19960974 ~ 19961182 (+)
tiger barb (Puntius tetrazona) TU138576 False 1073 lncRNA 0.39 2 NC_056711.1 13759556 ~ 13760734 (+)