RNA id: TU560548


Basic Information

Item Value
RNA id TU560548
length 693
lncRNA type intronic
GC content 0.37
exon number 1
gene id G488569
representative True

Chromosome Information

Item Value
chromosome id CI01000340
NCBI id null
chromosome length 19571558
location 3950424 ~ 3951116 (-)
genome version v1_2015/06_NatureGenetics_grasscarp_Genome
species grasscarp
(Ctenopharyngodon idella)

Sequence

AAAAAAAAAATGCATCCATCCATCCATCGTAAAAGTACTCCATACGGATTCAGGGGGTTAATAAAGGCCTTCTGAAGCAAAGCGATGGGTTTTTGAAAGAAAAATATCCATATTTAAAACTTTATAATATAAAATAACTAGCTTCTGGAAGACGACCGTACGCATACTGCGACTTGCGGCACAAGAGTAACCCCTGACGCGATGTATGACACAGGATGTAAGAGTATCGTAAGCTTAGACGACTCTCGCGATTTAAACAAATAGGGCTGGGCAACAAACTCAAGCTCCTCTTCTCTTATATTGAAATCACACTCGGTTGTATATAATCATAATGCTTTGCAAAACTGATACAGGAGGAAAAGTTTATTTATTGTTGTGCTGCTGTAACATGTAAATTTCCCCTAGGGAATTAATAAAGTTTATCATCATCATCATCATCATCCCCCAACATTTCTCTTTAAAATTTCTCATTTTAGACTTTTAATTTGTGACCGGTGTTTTGTTTTGCTCTAGCCTCTGCGCTTCTGCGTTCGTCATTACTTCATGCATCGGGTCAGGGGTTACTCTTTTTTTTTTTTTTTTTTTTACAAAAAGCCATCACTTCGCTTCAGAAGGCCTTTATTAACCCCCTGGAGTTGTGTTGAGTATTTTTATGATAGATGGATGTACTTTTTTTTGCTTCAAATTTGGGCC

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
TU560558 lncRNA downstream 89 3947375 ~ 3950335 (-) True G488579
TU560758 lncRNA downstream 5353 3944805 ~ 3945071 (-) True G488768
TU560749 lncRNA downstream 27508 3922685 ~ 3922916 (-) True G488759
TU560748 lncRNA downstream 28355 3921455 ~ 3922069 (-) True G488758
TU560746 lncRNA downstream 46159 3904053 ~ 3904265 (-) True G488756
TU560562 lncRNA upstream 90 3951206 ~ 3958828 (-) True G488583
TU560760 lncRNA upstream 33629 3984745 ~ 3985271 (-) True G488770
TU560761 lncRNA upstream 34856 3985972 ~ 3986218 (-) True G488771
TU560762 lncRNA upstream 36773 3987889 ~ 3988847 (-) True G488772
TU560763 lncRNA upstream 38329 3989445 ~ 3990029 (-) True G488773
CI01000340_03750211_03772917.mRNA mRNA downstream 176508 3749935 ~ 3773916 (-) True CI01000340_03750211_03772917
CI01000340_03713291_03747080.mRNA mRNA downstream 203152 3712753 ~ 3747272 (-) True CI01000340_03713291_03747080
CI01000340_03670820_03675367.mRNA mRNA downstream 275057 3670713 ~ 3675367 (-) True CI01000340_03670820_03675367
CI01000340_03622734_03659141.mRNA mRNA downstream 291268 3621970 ~ 3659156 (-) True CI01000340_03622734_03659141
CI01000340_03607549_03614126.mRNA mRNA downstream 336298 3607130 ~ 3614126 (-) True CI01000340_03607549_03614126
CI01000340_04086574_04090310.mRNA mRNA upstream 135114 4086230 ~ 4090310 (-) True CI01000340_04086574_04090310
CI01000340_04277249_04284722.mRNA mRNA upstream 326023 4277139 ~ 4285407 (-) True CI01000340_04277249_04284722
CI01000340_04362537_04371224.mRNA mRNA upstream 411259 4362375 ~ 4371224 (-) True CI01000340_04362537_04371224
CI01000340_04381260_04383972.mRNA mRNA upstream 429968 4381084 ~ 4383972 (-) True CI01000340_04381260_04383972
CI01000340_04384950_04386594.mRNA mRNA upstream 433694 4384810 ~ 4386594 (-) True CI01000340_04384950_04386594
TU559770 other downstream 2048152 1895801 ~ 1902272 (-) True G487884
TU557495 other downstream 3159015 786551 ~ 791409 (-) True CI01000340_00787534_00791061
TU557449 other downstream 3624708 325334 ~ 325716 (-) False G485786
TU557450 other downstream 3624761 325334 ~ 325663 (-) True G485786
TU557403 other downstream 3868329 79415 ~ 82095 (-) True CI01000340_00062787_00080635
TU560772 other upstream 54689 4005805 ~ 4006448 (-) True G488782
TU560860 other upstream 556080 4507196 ~ 4518120 (-) True G488862
TU560885 other upstream 649104 4658632 ~ 4659061 (-) True G488887
TU561021 other upstream 1369637 5320753 ~ 5325144 (-) True CI01000340_05321995_05329778
TU561569 other upstream 2232174 6183290 ~ 6220642 (-) True G489516

Expression Profile