RNA id: TU495764


Basic Information

Item Value
RNA id TU495764
length 3646
lncRNA type inter_gene
GC content 0.38
exon number 2
gene id G431764
representative True

Chromosome Information

Item Value
chromosome id CI01000306
NCBI id null
chromosome length 11491657
location 1508586 ~ 1512270 (-)
genome version v1_2015/06_NatureGenetics_grasscarp_Genome
species grasscarp
(Ctenopharyngodon idella)

Sequence

TGTATTACGTCACGGAAGTTAACGCTTTTTGGACGTACGTCGAATGCGTATGGCTGTCCCGCCGGAAGCTCGTTATTTTGCTTTATAAAGTTTTAAATGAGGATATTTGTCTTAAACAAACGCATTGATTCGCTTCAGAAGGCCTTTATTAACCCCCTGGAGTCGTATGGATTCATTTTTTTAATGGATGGATGCATTTTTTTGTCTTCAAAATTTGGGCTGCCATTCACTGCCATTATAAACCTTGGAGGACTAAGGATATTTTTAAATATATCTCTGATTGTGTTCGTCTGAAAGAAGATACGTCTTTCATTCGTCTGAAAGAAGGTGTATATGACTTCTTGTATATGAAAGAAGTCATATACACCTGGGATGGCTTGAGGGTGAGTAAATCTTGGGATAATTTTCATTTTTGGGTGAACTAACCCTTAATGGAGTAACAGCTGAACATGATTATTGAGTTACTGTAGCAGCAGAAACCCTCAGTTATATTTGTGACATTATTCGGCAGATGTTTTATTCTTCAGAGTCAGGTCAACAGTTGCTCAGTAAAGCCCAAAGTATACTTCACTTTTTACGCGTACGTGAGGGTCAGTGTACAGCGCGCATGATGCGAATTACGTCATCAGAAGAGTGCGCGCACTGCCAGATTTTTGTAACCACGCGTACTTGTACTAATACTAATTTTTTTGCAGTAATTAGTTTATCCACAAGGTGGCAGCTGTGCCCTGGGGGCGTCAATTCACAAAGTAGTCGGGAAAAAAACCTGCATAAACAGACGGTAACTCATGCAAGCTACAGCGTCAATGGAGGCCTATATAGACAAGAGATTTTGCGAAGAAAGATAGAAAGTATCCTCATTATTATTTGACACACCCACTTCAGGTCTTGCTGTCTCTACTAATGAGCTGATGAGTTGAATCAGGTGTGTTAGATGAGGAGACATACAAAATGTGCTGGGGGTCCTCCAGGACAGGTTTGAAAACCCCTGCACTAGCGTACGCGTAAAAAAACGAAATATACCGAGGGCTTTAGACTCTCCATCATGACAGGAATTGAGCTGACTGTAGAGGAAGATGGTTTGATGTTGCACCTCTCACTGCATGAAGAAGAAGAAGCGGATGTTTTACACATGAAACAGATGCAGCTCTTACCGTGTTTCTCAAGCTGCACAATGCAGTGTATCACAGAGAATATGAAGACAGCGCTGCGTCCTGATTGGTTCGTTTGCATCTGCTTCAGCCAATGAGGTTCTGCTCTCTTTATCTTAGCTGTCACTTCTGACCTCATTGGCTCTTCAGTCTCTCAGGACGCAGATCACTTCATCCTGGAACAGATTCTTCCTCTCATGTAATCGGGTCATGAAGCTCGTGCACACACGTGATGCAGACCCGGCTAAAGTTATCTGGTCTTTAAAGGTGCAGTAAGCAATTTCTGAGAAACGCTGTTGGAACTGGATCGGACCGAGCACCACTTGTAGCCAATTAGCAGTAAGGGGCGTGTCCACTCATTAGGGGGGAGGTGCCTGTGCTGCATAGCGTGTTTGTGAATTTGGGGGCGGTGCTATCAAGATAGGGGTGTGATCATTTTGGGTAGGGGCGTGTTTGTTTTGGTGAATTCAAATATCAACAGTGTTTCTCAGAAATTACTTACTGCACCTTTAATAATGTACAAAAATGTTATTTATACATCAATCATGCAAAAGATTTTAAAATGTTCAGAAATAACGTTTTCATAACTTAATGGGAACGTTAGGAAAACGTGCTTAAAACATTTTTTTCCAGCTGGGGAGGGGCTTGTTTTACACCTCATTAACATACTGTATCAGACAGAGAAGGTTGTAATTGATTTCATATAATTTTCATATATTTAATATGTGTATGTCAGGTTAAAGAGATGTGTTTTTAGTCTAGATTTAAACTGACAGAGTGTGTCTGCTTCCTGCTTGGTAGATGAAGAGATTGGGTGTTGAATAGGAAAAGGATCTTCACAGTCAATTTTGATAATCTAGGTGTTATCAACTGGCCAGAATTTTTTTTGAGCTTGCAGTGGATGTGAAGGACTGTTCGTAATGTAATAAGAGCTCACTCAAGTATTGAGGAGCTGAACCATTCAGGGCTTTATATGGAATCAGCAGGATTTTAAAATGTAAAGGATGTTTAATAGGCAGCCCATGCAGTGTTGACAGAACCGGGCTAATATGGTCATTCTTCCTGGTTCTAGAAAGAAACTACTGGAGTTTGTTTATTAAGCTTGCAGGGCAACCGCCCAGTAAAGCATTACAATAATCTAGCCTTGAGGTCCTAAACGCATTAACTTTTCTGCATTCACCCCTGAGAGCATATTTCGTCATTAAGAGATATTTTTAAGGTTACAAAAATTGGTTTTACAAATGCCAGGGATGTGGGTTTCAAAAGAAAGATTGCTATCAAAGATCACTTCTACACTTTGGTATCAAATCTACACTTCTCAGTTTCTCCAGATGAAAAGATGAACTCACATGTGCTTCAACTAGAGTTTTAAAACTAAAGTTATTGTGCCTCAAAATCAAAAGCAAGAGATCTTATTAAGAATTTAAAAAAATTCTTGTTAAATTTTCCCAATACCAAATGCAAATTCCTCTAAATTAACAATTACATTTACAGGTTACTGTGTTTTCTCATTAACATTCACTAATTAATTTACTTGTAGCAACAAAGGCAAACATTATGTGTGATTCACTTTTTTTTAGTCAAAATGGAGCCTGCTATATGTTTTTTCTCATTTATTATATCTGTACAAACATCAGTGTGTTTGGTTTGATCTGTTGGTGGATAAACCGCTGTGTGTGTCAGTAGTTTGTCGTAATTTTCTCTCCTGTTAATAAGAAGCTCACAATCTCACAGTCAGAAGCTAATCCAATATACACTCTTCTGCTATTAGTTTTCATTCAGGGCCAGAATTTATTTGAAAATGTGCACCCTTGTGAATTCTATGGTTTACCATATCAGGGCATAATAAAAATTCACCTGCTCATTAGCAGGTCTTAAAAACGACATATTACTTTTTGCTGTTATCTCCTTTGTTTGACACTGGAACTGGTAATAACCTTTTTTTCAGGCTTCTGATTGGCCAACATGGCTTTATGGTTAGTATTATAATGCCACCTGCTGGTTTGGCATGCTCTTGACAGCACTTCATAGTGTGTTTTAGCATTTTCATGTGGACAGAGATTGTTTTTTTAAACGAAGGAAGAAAAAAAATCACTTTATAAAAATATCCATGTACGTGTGGATTAGTTGAAACAGTAAGGATGTACTTAGTTTGTCACACACGGTGTCTCTATTTTGGCCAAATTTTTTGTCAAATAAATAATGAAATGGTGTAATATGTCGTGTTTTTGTTGTTCATCTGAGGTTGTATTTACCTAATTTTAAGACCTTCAAGTACTTTTTCATTATGCCCTGATACGTAAAACCCTAAAATTCATTTAGGTGTCCTGTTTTTTCACGTGACTTTAAGATCAGCAAAATCTTGTTGAATTTTGTGATTGTGTAAGCAGAAACTGAGGTTGGAGGAGGATTCACACACAACCAGATAAATATCACAGTTCAGTCATGTTTTATAGACATTTTAAGGGTTACTATCGTGGGCTTTTCAGTGAACC

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
TU495915 lncRNA downstream 4906 1503389 ~ 1503680 (-) True G431890
TU495760 lncRNA downstream 77020 1430802 ~ 1431566 (-) True G431760
TU495774 lncRNA downstream 78480 1429374 ~ 1430106 (-) True G431774
TU495769 lncRNA downstream 80291 1427998 ~ 1428295 (-) True G431769
TU495911 lncRNA downstream 83340 1425042 ~ 1425246 (-) True G431886
TU495732 lncRNA upstream 113075 1625345 ~ 1626017 (-) True G431732
TU495737 lncRNA upstream 193079 1705349 ~ 1706071 (-) True G431737
TU495746 lncRNA upstream 215219 1727489 ~ 1732425 (-) True G431746
TU495757 lncRNA upstream 220475 1732745 ~ 1740620 (-) True G431757
TU495747 lncRNA upstream 241144 1753414 ~ 1754504 (-) True G431747
CI01000306_01502721_01504240.mRNA mRNA downstream 4346 1502666 ~ 1504240 (-) True CI01000306_01502721_01504240
CI01000306_01483485_01492511.mRNA mRNA downstream 16075 1482872 ~ 1492511 (-) True CI01000306_01483485_01492511
CI01000306_01476783_01478195.mRNA mRNA downstream 30391 1476664 ~ 1478195 (-) True CI01000306_01476783_01478195
CI01000306_01469486_01475137.mRNA mRNA downstream 33449 1468788 ~ 1475137 (-) True CI01000306_01469486_01475137
CI01000306_01439864_01463150.mRNA mRNA downstream 45436 1439786 ~ 1463150 (-) True CI01000306_01439864_01463150
CI01000306_01514599_01534002.mRNA mRNA upstream 2085 1514355 ~ 1534002 (-) True CI01000306_01514599_01534002
CI01000306_01572341_01576690.mRNA mRNA upstream 60071 1572341 ~ 1576690 (-) True CI01000306_01572341_01576690
CI01000306_01580628_01611787.mRNA mRNA upstream 68104 1580374 ~ 1611787 (-) True CI01000306_01580628_01611787
CI01000306_01633237_01635512.mRNA mRNA upstream 120803 1633073 ~ 1636773 (-) True CI01000306_01633237_01635512
CI01000306_01665458_01676209.mRNA mRNA upstream 152527 1664797 ~ 1676223 (-) True CI01000306_01665458_01676209
TU495821 other downstream 196152 1311702 ~ 1312434 (-) False G431814
TU495679 other downstream 345248 1163027 ~ 1163338 (-) True G431706
TU495333 other downstream 1024937 448704 ~ 483649 (-) False G431428
TU495726 other upstream 205663 1747526 ~ 1748222 (-) False G431728
TU495727 other upstream 205663 1748822 ~ 1748950 (-) True G431728
TU496065 other upstream 1487966 3000236 ~ 3003891 (-) True G432022
TU497393 other upstream 3030453 4542723 ~ 4545092 (-) True CI01000306_04544349_04545034
TU497685 other upstream 3849373 5361643 ~ 5383763 (-) True G433450

Expression Profile


Homologous

species RNA id representative length rna type GC content exon number chromosome id location
rainbow trout (Oncorhynchus mykiss) TU243159 False 6228 lncRNA 0.47 4 NC_048566.1 102749682 ~ 102756525 (-)
eurasian perch (Perca fluviatilis) TU243159 False 380 lncRNA 0.49 2 NC_053128.1 31811729 ~ 31831517 (+)
striped catfish (Pangasianodon hypophthalmus) TU243159 True 1250 lncRNA 0.44 2 NC_047607.1 4671760 ~ 4673029 (+)