RNA id: TU43873


Basic Information

Item Value
RNA id TU43873
length 473
lncRNA type inter_gene
GC content 0.44
exon number 1
gene id G38721
representative True

Chromosome Information

Item Value
chromosome id CI01000005
NCBI id null
chromosome length 7630583
location 4543337 ~ 4543809 (-)
genome version v1_2015/06_NatureGenetics_grasscarp_Genome
species grasscarp
(Ctenopharyngodon idella)

Sequence

CTACAGTGTACCTGCTCAAATTTGGCTGTACCCTTTGCCCAGCCTCCCTCATTGTTAGACCATGGTTGACCACATGGTCAACCAAAGTGGTTTGGATCTCATTAGAGATTATGGTCCTTGGCCTTCCTCGTCCTCCCCGTCCTCCTCCTCTTACTCTCACTCCTCTGGCTCTGCCTCTGTTTCCATTGTTGGCATCCATTGCTACAAAACAGAAGAGCTCACCTGTTGCCCTTTTATGTTAAAGCTCTGTTTGCTAATTGTAAAAATGTGTGACAGGTGTTTGCCCATGTGATGAGTCAGTGTGCAGATTTGAATGGCAGTGTGTTCCTTGTGAAAACAAGAGATTTTTCTGCCCGAAAATTGTACCAAATGCAGAGAATTGTGTGTAGTGTTTTGAAAAAAGTGTGTTTTAGAACTGCAATGTGAGTGTAAAGCAGGAATTGTGCTTGTAGTTTAGCAGAATTGGTTCAGGG

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
TU43871 lncRNA downstream 1164 4541902 ~ 4542173 (-) True G38719
TU43664 lncRNA downstream 175330 4366516 ~ 4368007 (-) True G38537
TU43657 lncRNA downstream 234163 4308961 ~ 4309174 (-) True G38530
TU43534 lncRNA downstream 243527 4296209 ~ 4299810 (-) True CI01000005_04296779_04299727
TU43644 lncRNA downstream 314772 4226726 ~ 4228565 (-) True G38517
TU43883 lncRNA upstream 3987 4547796 ~ 4548225 (-) True G38724
TU43884 lncRNA upstream 4792 4548601 ~ 4548844 (-) True G38725
TU43888 lncRNA upstream 7956 4551765 ~ 4552030 (-) True G38729
TU43917 lncRNA upstream 114009 4657818 ~ 4668634 (-) True G38756
TU43921 lncRNA upstream 154618 4698427 ~ 4705877 (-) True G38760
CI01000005_04443111_04445092.mRNA mRNA downstream 98245 4443053 ~ 4445092 (-) True CI01000005_04443111_04445092
CI01000005_04401277_04428207.mRNA mRNA downstream 115130 4401248 ~ 4428207 (-) True CI01000005_04401277_04428207
CI01000005_04332499_04357527.mRNA mRNA downstream 184480 4332490 ~ 4358857 (-) True CI01000005_04332499_04357527
CI01000005_04296779_04299727.mRNA mRNA downstream 243552 4296638 ~ 4299785 (-) False CI01000005_04296779_04299727
CI01000005_04161239_04162612.mRNA mRNA downstream 380091 4160972 ~ 4163246 (-) True CI01000005_04161239_04162612
CI01000005_04624198_04638644.mRNA mRNA upstream 80187 4623996 ~ 4638644 (-) True CI01000005_04624198_04638644
CI01000005_04731666_04732248.mRNA mRNA upstream 187779 4731588 ~ 4732248 (-) True CI01000005_04731666_04732248
CI01000005_04738995_04739378.mRNA mRNA upstream 194810 4738619 ~ 4739378 (-) True CI01000005_04738995_04739378
CI01000005_04751377_04754904.mRNA mRNA upstream 206688 4750497 ~ 4754904 (-) True CI01000005_04751377_04754904
CI01000005_04758130_04802713.mRNA mRNA upstream 214258 4758067 ~ 4802713 (-) True CI01000005_04758130_04802713
TU43542 other downstream 142227 4381238 ~ 4401110 (-) True G38415
TU43637 other downstream 337129 4204845 ~ 4206208 (-) True G38510
TU41481 other downstream 2654061 1883254 ~ 1889276 (-) False CI01000005_01883894_01899867
TU41482 other downstream 2654061 1883254 ~ 1889276 (-) True CI01000005_01883894_01899867
TU41601 other downstream 2879058 1663267 ~ 1664279 (-) True G36628
TU44762 other upstream 1289983 5833792 ~ 5834392 (-) False G39515
TU44763 other upstream 1289983 5833792 ~ 5834539 (-) True G39515
TU45564 other upstream 1936880 6480689 ~ 6483489 (-) True G40190
TU45920 other upstream 2651986 7195795 ~ 7196428 (-) True G40487
TU46013 other upstream 2982412 7526221 ~ 7532148 (-) True G40540

Expression Profile


Homologous

species RNA id representative length rna type GC content exon number chromosome id location
rainbow trout (Oncorhynchus mykiss) TU880886 True 327 lncRNA 0.39 1 NC_048573.1 13506512 ~ 13506838 (-)