RNA id: TU54223


Basic Information

Item Value
RNA id TU54223
length 4742
lncRNA type read_through
GC content 0.39
exon number 3
gene id G47673
representative True

Chromosome Information

Item Value
chromosome id CI01000006
NCBI id null
chromosome length 13024002
location 11063673 ~ 11069048 (-)
genome version v1_2015/06_NatureGenetics_grasscarp_Genome
species grasscarp
(Ctenopharyngodon idella)

Sequence

CCCCCAAGATTTATTTCCATATATCTTTCAATTCAGTGATGTTTTTTCATACAAAATGTAAATGGTAGAAATGATAAGACTGATAAGAGTCAATGAGCAAAAATATATGGCATCATAGATCAATCATCAGATCACAGGAGTGAGGCAGTCGTCTCTGTGCATCGCTCCACTGTTCAACAACTCTTTTACAACAAACTGAGAAGTGCATGGTCTTCTAATTTTCTCCCAGAAATCCAGGGGTAAGTGTATCAAAGATTGTTTCTTAAAAAAAAAAAAAAAAAAAAAATCAACAGCCAATTAACTCCTCATAGAAAAACATGAATGAATGTTTACAATTTCCTACATGCACATATGTCATCATAACATGCAAACATGACATCATCCAAAGAGATTAGCCACAGGTTAGTTGGACAAAGTAGCCTATACAGCACACAGAGACAAACTAGTGCTGTAATAAATTTGGCACCTGGTATATATATTTTTCCTTTTTTTTCTTTTTCTTTTTTTTCTTTTTTTTTTTTTAAGAGGAAAGGTGATGTCTAAATTAAGGGAAATCAAATATCTACTGGGTATCGGGTAGATCACAACACTCATCTCCGTCCCAAAACAAGGAAATAGTGGCCAAAGGCAGTTCACTAGGACATCACATACTGTAAAAAAATAAAGAAATAAAATGTCTTTACATTAACTATCCTTTTAGTGACAGGTTGCGTAAAACAACATTGGTTCACCTCCAAGTGCAATCAGTACAAATACCACTATATTGTTTTATATTCTTTCAGAGGGCTGTTCAGTATCAAGCATAATCAGCAATGCATTTTTAGGTGAGCGACACATCCTGTATATCAAGATCTCTGTGAAGCTGTGAATTGGTCCCACTGGTGCTAAAGCTAGAGTGTGTTGAGTGCAGGTAAAGCTACAGGATGAGAAGCAGTCCTAAAGTGTCATTTTGTTGCATAGCCCTACTGTACTTCAACAGTCAACATTTACCTGTGGAACAGTCAGGTTCCACAGGTAAAGTTTCTATTCATTTTTTCCATAGAGAACCCGATATTGTATTAACCTTTCAAATTTCCATATTATTATGAATGTTGAGATTCTTAAAGTCCCCCTGTAGTCAATCATTTTACCCCTTAAAACTCATCTTTGATCACCAAAATGACATATTTAAATGTTTTTTTCCTGTGAAAAAAAATTCTTCATCAATGTAACTCTACATCCTTGCTTGATTTAGTATACGCGGATCTATGAATATGCTAATTAGCCCCGCCTCCACTCACTCGCACAAGCTCAGAGATCCACTCGGTCAACTTACTGAGGTAAACGCTGCACAATGGTATCGCTTTTTACAACGTTGGACACATAACAGTAGAGCTGCACGATTCTGGATAAAATGAGAATCAGGATTTTTTGGTTTCAAATAGAGATCACGATTCTCCCACGATTCTGAATATACAACCAAACAAAATAACATGAAGGCTAATTTACTAGAGGTTCTGAAAAAATATAAATTGCTGACTCTAATTGCTGGAAAATTTTTGAATGAATTGTTTAAAAAATGGTTTTGAATGAATTCAATGACTCATTAATAAATACTTTTTCATTTCTGGATGAATGTTTCATTGCTGAATGAATCTTTTGAATGAACGATTCAATGACAAATACATTTTTAAACAGTCAGTTGTCGCCACCTAGTGGAATTAGATGTAATTGATACAACCGTTATTTGAAGTGCCAATTTCGTTTCAAAAAGGTAGTTTGCTCTATTTTGATCGCTATCGTAGACATCGGTGTTTAAATACTAACATAAAACTTATATCTCAGTACTTCTGTGATAATGTGAATATTTGTAACACAGAAATAACTAATGTGTGATTCAAAACAGCTCTCTCTGGCAGCACGAACACAGATTTGAAAGTTCCGGTATGATTTTGTCAAAGGTTTAATGGACGCGGGAGAATCGTTGTCATTAATAAAGTAGGATCGCGTGGGTGCTTGAATCGAGATCGCGATATTTTTACGATTAATCGTGCAGCTCTACATAACGGTAATTAATGTGATTAGCCTTTTGCTTGACTACCCAATTTTTCATATCAGCAGTAAACTATACTTTTTTTTCCAGTGGCTTTATACCCGTTTTAAAAAAAAATCTATATAAAAATGCTTCAATTTATATTGTTTTCCATTAACTTTATACACCTTATGCACCAGATAAACAAGCGTGCAGCCATCTTTAGAATTTTGTTTCCGTTTTTGCAGTAGCTCTGTATATTTCTATGGCATCGCTGTCAAAGAGTAATTAGCTGGTGAAGTGGAATTACTTATTGTAAAGTTAACGAAAGTTATAATGAGCATTGTAATGTTTGAAGCGGATGTCATAACAAATGTTCATTCATAAATCCGTAACATCTCACCTTCCTGCTGTGAAAATACAAACCGGAAGACAGAACACAATGAGTGCGGCTCTGAAAAAGGGGCGGGGCTACATAAGGTCTATACTGTAAGTCAAAAGTTATAGCTTCGTGGGATTTATTCCCTCATTCTATTTTACATTATTCCCCAACTTCAAATACTTTTTTTCCTTGAAACCTTTTTCCAGAACCAAAGCAACTGCAGCAACTGTTGCGCTCTATTGCAGGGTCGCCCTAAAAACAACACCATCTAATAAACCCCTGACATAGAAAAGACACGGTTGGAGACGACGAACTGAAAATATGGGCAGGATCAGAGTGAAATTCACCTTCTCAGAATAAATTAACCTTAATTTATTAACTATCATCAAAAACATCAGAATACAACATAGTCTTTATTTCAAACAGGTCGCACTGAAGCAATTTTGCTTGGTGAATAATAGATACAAGTGGAAGTCAATAAAGCACTTCAATTCCCTCACCTTCCTCCTCCTTTAATTAAATACTGGAAGAGAAATTCATGAGCTCACAATACACCCTCTGGAAACAACACTGACACCAACAGCAACCAACAAATACAACCTTCTAACATCCTTTCAGTCCTCTATAAACCAACTGCATTAGCATTTTTAATATATCATCTATTTTCCCCTGAATCTTTTCATTAATACACTCTGAAAAGACCAACATCATCAACATCCACCTAAACTATCTTTATAACGCTACAGTCTTTGTTTTGTGCAATATCTTTCCTCAAATACATGCTCAAGTACATTTAAGAAACAAATATCAGTGACATTTAACCTACACCATATAGCTTCTATTCGCTGCCTCTTTCAGGCCAAAATGCTTCGTAATGAATTGCGCACCAATGTGGCAATAAAATCTCAAAATTTAGGCACTTGGTATCTTACCACTCAAGAGTAAGAAAAGGATTAGACCTTATGTAATGTCCAGCTACACTCGGATCATTTACAAGGTACAAAATGGAACACTGTGAAAAGATATTCAATCTACTGCAGTCTGATAGAAAAGTGAGTTCAATTTGGCCTTTTTTTCAGTAAGTGGGAGCAAACCGTCTATTCCACTCACGCTAGTGATGAGCGCTGCATTTTATCCAAGTTAAGTTGAACATCAACGTCAAGCGTGCAACGCTCAGCGTGGAATAAACGTTCTGTGCCTCATCATTCGGCTGGCTTTTTTAAAAAATATATGGAGGTTCCATTGCAAACAACTGAACAAAGCCTCAGAAAAAAACATTTTAGTGGACACAGAGCCAAAATCCCTAGAAACAACTTTTCAGTCATTGCGTCCTGTGCAAAGAGTCTAAACAACCTCTCCAACCACAACAACTAAACATCTCACTTTTTCCACACAACTGATCAAGAGTGTTTCCATCATAGCTTGTATTTTTGGGCATCTTCCTCTCTGAGGTCTGAGGTCTTGATCACAGGCACAGCTGATGTGACCATCTCCCTGCATGTGACCCTTGTGGAATCAGCCCTAATTAAATTAAAAGCGGTGGGGGGTGTCACTTGAGGCTAGACTGTTTGAAACCCATCAAGACCTCCAAACGCTTTCCATCTTGCCGCTACTTTCGCAAACAGTGACAAGGTTGTCTGCTTCTTTCTAAACAAGAGAAGAACACCTTTATAAAACCTTATGTGCTCAACCTGATGGTAAACGGGCAGAAAACAGTGTAAACTGTGGACATAACTCTTGTTTCCCCCAAAAAATAGCTCCTCCACTCAGGGCAAAGACGATAAAATGCATGCTAGATTGAATCATGCTAACACCAGTCATCTCTCTCAGTCTCCTGGTAGCTTCCAGATGCTCGGCCGCTCGAACCAGGTGCCGAGTTCACTCCGAGGGAGTAGTGATAGCCATTGGGGACTCCGCTCTGGCTGCGCGAGAGCAGCGTGGAAGTGGGGGTTGCACCTGATGTTGTGTAGGTGACGGAGGGTGCAGTCCTGGGGGAACGGCTCGCACCGTACGTGCTCAAGGCATCGTGGAAGTCATCTGCTTCAGACAAGTGCGAGTCTTGCTGGAGGGGACCTAAGTTGGGGTCAGAGCTGATACGAGTGACAGGCACGGGAGATTGGCGGTGGGCGTTACCGCTAAGTAGGGCATCGTGCTCTGACAGGCCACGACTAAGGCGAGTGGGGCAGGGCCCTGTAGACTGGGCAGTGTTGAGCTGGACCGGAGAGGAGTTGGCAGTCTTGTAGGCAACAGCCGGCCGAGGAGTAAGGGGCGTCTGAGGGAGCTGTCTACGCCCACGGCAGGGTGTGCTGGTGCCTGAGGTATGAGCGACTGAACTTCCTTTAGCAGTGT

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
TU54218 lncRNA downstream 8092 11054903 ~ 11055581 (-) True G47668
TU54203 lncRNA downstream 44464 11017763 ~ 11019209 (-) True G47654
TU54186 lncRNA downstream 74870 10974694 ~ 10988803 (-) True G47638
TU54170 lncRNA downstream 138063 10917556 ~ 10925610 (-) True G47622
TU54166 lncRNA downstream 149575 10913811 ~ 10914098 (-) True G47618
TU54231 lncRNA upstream 42566 11111614 ~ 11115511 (-) True G47681
TU54350 lncRNA upstream 218587 11287635 ~ 11290951 (-) False G47758
TU54351 lncRNA upstream 222464 11291512 ~ 11292481 (-) True G47758
TU54403 lncRNA upstream 410058 11479106 ~ 11480792 (-) False G47806
TU54408 lncRNA upstream 410058 11479106 ~ 11482501 (-) True G47806
CI01000006_10676705_10699710.mRNA mRNA downstream 363791 10676367 ~ 10699882 (-) True CI01000006_10676705_10699710
CI01000006_10499329_10508831.mRNA mRNA downstream 554018 10499295 ~ 10509655 (-) False CI01000006_10499329_10508831
CI01000006_10453630_10483241.mRNA mRNA downstream 579667 10453613 ~ 10484006 (-) False CI01000006_10453630_10483241
CI01000006_10402704_10447782.mRNA mRNA downstream 614572 10402695 ~ 10449101 (-) True CI01000006_10402704_10447782
CI01000006_10372387_10387314.mRNA mRNA downstream 676071 10372129 ~ 10387602 (-) True CI01000006_10372387_10387314
CI01000006_11320839_11338355.mRNA mRNA upstream 251414 11320462 ~ 11338355 (-) True CI01000006_11320839_11338355
CI01000006_11388077_11391485.mRNA mRNA upstream 318446 11387494 ~ 11391485 (-) True CI01000006_11388077_11391485
CI01000006_11459706_11462546.mRNA mRNA upstream 390240 11459288 ~ 11462605 (-) True CI01000006_11459706_11462546
CI01000006_11530728_11535297.mRNA mRNA upstream 461318 11530366 ~ 11535900 (-) True CI01000006_11530728_11535297
CI01000006_11596063_11609407.mRNA mRNA upstream 526591 11595639 ~ 11609407 (-) True CI01000006_11596063_11609407
TU54208 other downstream 30546 11030911 ~ 11033127 (-) True G47658
TU53918 other downstream 575238 10488238 ~ 10488435 (-) True G47397
TU52113 other downstream 3552717 7510829 ~ 7510956 (-) True G45821
TU51023 other downstream 4086801 6973450 ~ 6976872 (-) False CI01000006_06974359_06976736
TU54279 other upstream 581315 11650363 ~ 11654407 (-) True CI01000006_11651067_11653761
TU55106 other upstream 1265361 12334409 ~ 12346649 (-) True G48451
TU55104 other upstream 1277144 12346192 ~ 12346649 (-) False G48451
TU55105 other upstream 1277211 12346259 ~ 12346649 (-) True G48451
TU55095 other upstream 1281711 12350759 ~ 12529810 (-) False G48450

Expression Profile