RNA id: TU488978


Basic Information

Item Value
RNA id TU488978
length 2473
lncRNA type antisense_over
GC content 0.46
exon number 1
gene id G425816
representative True

Chromosome Information

Item Value
chromosome id CI01000304
NCBI id null
chromosome length 18613800
location 12686128 ~ 12688600 (+)
genome version v1_2015/06_NatureGenetics_grasscarp_Genome
species grasscarp
(Ctenopharyngodon idella)

Sequence

CGCCTCACCCTTTTTTTTTGTACATGATCTAGAAAGGACTTCGTTTACGTACATGATAAACAGCAAAAAATTTCTTACAATCTCTTTGCAATACGTATTGACTACCCACTACTGCTTCAGTGGACATTTTAATGTTTGATTTTAAGAAAAAATTAGAGAAAAGTAAAGGGAAAAAAAAAAAAAAAAAATCACTGCACAACATCTGAATTTCACAGAGTTTAAAAGCGCACAACTATCCCTCCCATGGACTACTAAAATAGATCTCTGCTCATTAAAAACAAACTTCCATAGCTTACAACTCGCTTTATCATTGTGTAGATACATAATATTTTAATACACATTTAGATCAATAGGGAATTGTCCTGCTTTCTGTACTCAAACGTCTCGTGACATAATGGGATGTGTTGTCATGTTTGCAGTCTTTTTCAAATTGCCACACTTCTGATTTAGAGGTAATTCAGCGAATTTAGGTTTTGTTAGGTTCTTGAAACATTTGTGTATTTGTAAGGATTGTCAACACAGATTTTTATCTTTTATCTTGATGAACAAAAGCATGTTTCTGGATCAAGAGTTAGGAAATATGTTTTATAGCTTAAGTGTGAGTAATATCCGTTGCTGAAAATCCCCATCTAGGAGCAATCTTGTAAGTCATGTGTAAGCATGTACTGTTGCTTTGACGGGAGAATGTGAGGGTTCAGTAGAGACTGGTAGTCCTCTAGGAGAGAGAAAACGTGATACAGAGAGAGCCCACGCATGAGTTGCATAGTTGAAAGAAGGGATGTGGTCTCTTGGACGATATGATCCTTCAAAACCATTAATATGCAGCATTAAACTAAAACCAGAGCCTGTGCGCTCACTCTCCTTTTGATCACTGCCCACTATGTACAGCATTTCAAAGTAAAGCTTTCATAACAACCATTTGCATATTTGTACCATACATTTTTCCCCTTAAGGGGAGAAAACACAGACTTCGCACATATCTACAAGTTCTTCCTTTTGTCAATGTATTGAGGTACCTGTACATTCCAAAATCACCTTTTCCATGTTGGAGATCTAATATTTGTCCACTTGCTCAAGATCAGTGTACTGTATATGTTTAAGAATACACACCAATGCAGGAGCGAACAGGATAAAAGAGCATGAAAAATCTTTTGTACAAAAACAAAACGCAACACACACAAAAAAATCAGTAATGCACAATCTATACACAGATATAATACAGCCTCAAGTGCTTGCTTTTGAGTTCCATCATAGTCCATCAGGAGTCTCACCGCGCCTCGATGTCTTTGTGTGTGTGTGAAGGGGGTCTGTCTCTAATGTCAGTGCCAAGTGGGGTAGTCCGTCTGGGAGATGTGGAACGCGCTCCCAGGGTTGGGATAAGAGGGGGTGGGGCACTGAGTGATGCAGTGGGAGGGGTTTTGTTGAGGATTCCGTTCTGGGCAGCAGCAGCCACAGCAGAGGAGGGGCTAACACGGGGGTAGTGCATGCTGGGAAGTCCGGGGGCCATGAGACCAGGGTGAGGGAGATGTCCGTCTAAAGCTGGGTGATGCATGGGGTGAAGACGCCCCTGCTCATATTCCTCTCGGAGCAAGTGCAGACGTTCCCTCTCTTCTAGGTGTGCCCGCTCTTGTTCCCGCCGCTGTTCCAAGGTCAGTCCGTGAGGGTGGTCTCGGTTAAAGTCATGAGGCTCGCGGTCCCGGTATGAGCGTTCTGCGTCATACAGCCGCGGTGCTGCTAACCGGTGCAGAGGGTCATTCCGTAGTAACAGATCCCGAGCTAATGGATCCCTCCGGTGGATGTCGAGTCCCCGATAAGGGTCCCTCATGGGATCCCAATGAAAGGCGGGATAGGGGAACCTCTCCGCCCCTGGGATGGGACTGATACCCATAAAGGGGGCCACCATACGAGTCCTCTCCAGACTACTGATACTGTTTATGGGATGCATGCTGGCCATGCCCATGGGTACTGGCATTGATGATGGAGGGTGAAGAGCAGCAGGAGGAGGAGGTGCTTGTGGTGTGGATCTTTGCTCTGGTGATCTTTCCGTGGGGCCGTCCTGCTCCTCTTTCCTCTCTTCTTTCACCTTCACCTCACTGTTTTTCTTCTCATACGTGATCTCAGCTTTCTTCTCCAGAACATCTCGAGTCAACCCGCCGTTCACCCGATCTACGCCGCCTGGCCGCATATAGGGTGACGCTGTAACCCGATTGGCCGGCTTGTCTTCAGAAACCCGGCCATCGTGGATGACGGAAGTGTCTTTGTCATTGTGGTGATTCTCCTTGCCCTTGTGCTCATCTGTGTTGGAGTCTTTCCAGTCCGAGTGCTCGCGTTCTCTCTCGCGATCTTTGGGCTTGTCCTTGTCCCGAGGCTCGCTGGAAGAGATGTGGTTCCGGGAGGGCTCAGACGTCCGAGTGTGACCCAACAGAGTGAGGGGGTTAACAGGGATCGGGGATTGGTGATTCTGGTGCCTCTT

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
TU488992 lncRNA upstream 1202 12684657 ~ 12684926 (+) True G425830
TU488972 lncRNA upstream 92263 12591256 ~ 12593865 (+) True G425812
TU488876 lncRNA upstream 96340 12588921 ~ 12589788 (+) True CI01000304_12583384_12588591
TU488950 lncRNA upstream 124703 12561074 ~ 12561425 (+) True G425796
TU488930 lncRNA upstream 230275 12455493 ~ 12455853 (+) True G425778
TU488979 lncRNA downstream 249 12688849 ~ 12689076 (+) True G425817
TU488993 lncRNA downstream 834 12689434 ~ 12689765 (+) True G425831
TU488994 lncRNA downstream 1829 12690429 ~ 12691062 (+) True G425832
TU488998 lncRNA downstream 4484 12693084 ~ 12694418 (+) False G425835
TU488997 lncRNA downstream 5588 12694188 ~ 12694418 (+) True G425835
CI01000304_12653236_12670625.mRNA mRNA upstream 15145 12652837 ~ 12670983 (+) True CI01000304_12653236_12670625
CI01000304_12601154_12621980.mRNA mRNA upstream 64135 12600836 ~ 12621993 (+) True CI01000304_12601154_12621980
CI01000304_12583384_12588591.mRNA mRNA upstream 97064 12583384 ~ 12589064 (+) False CI01000304_12583384_12588591
CI01000304_12569155_12569469.mRNA mRNA upstream 116394 12569155 ~ 12569734 (+) True CI01000304_12569155_12569469
CI01000304_12556446_12557806.mRNA mRNA upstream 128052 12556446 ~ 12558076 (+) True CI01000304_12556446_12557806
CI01000304_12718988_12729338.mRNA mRNA downstream 30167 12718767 ~ 12729850 (+) True CI01000304_12718988_12729338
CI01000304_12744525_12773999.mRNA mRNA downstream 55459 12744059 ~ 12774312 (+) True CI01000304_12744525_12773999
CI01000304_12819247_12825161.mRNA mRNA downstream 129379 12817979 ~ 12825313 (+) True CI01000304_12819247_12825161
CI01000304_12828251_12839287.mRNA mRNA downstream 138714 12827314 ~ 12839991 (+) True CI01000304_12828251_12839287
CI01000304_13331382_13338351.mRNA mRNA downstream 642782 13331382 ~ 13339248 (+) True CI01000304_13331382_13338351
TU488854 other upstream 247042 12434972 ~ 12439086 (+) False CI01000304_12437868_12439019
TU488858 other upstream 247042 12436554 ~ 12436605 (+) True G425718
TU488852 other upstream 247042 12437804 ~ 12439086 (+) True CI01000304_12437868_12439019
TU487556 other upstream 2130424 10555614 ~ 10555704 (+) True G424559
TU487195 other upstream 2493233 10189315 ~ 10189404 (+) True G424251
TU489575 other downstream 867851 13556451 ~ 13573943 (+) True G426349
TU489538 other downstream 1641448 14330048 ~ 14330886 (+) True G426312
TU490061 other downstream 2260290 14948890 ~ 14950592 (+) True G426828
TU491290 other downstream 3196854 15885454 ~ 15889591 (+) True G427860
TU491458 other downstream 3394630 16083230 ~ 16083714 (+) True G428017

Expression Profile


Homologous

species RNA id representative length rna type GC content exon number chromosome id location
bowfin (Amia calva) TU193605 True 2745 TUCP 0.51 2 CM030142.1 7785554 ~ 7788321 (-)
mexican tetra (Astyanax mexicanus) TU193605 True 595 lncRNA 0.49 5 NC_035912.1 21362598 ~ 21389925 (+)