RNA id: TU28961


Basic Information

Item Value
RNA id TU28961
length 1706
lncRNA type antisense_over
GC content 0.35
exon number 2
gene id G25661
representative True

Chromosome Information

Item Value
chromosome id CI01000004
NCBI id null
chromosome length 17451736
location 1755538 ~ 1757321 (-)
genome version v1_2015/06_NatureGenetics_grasscarp_Genome
species grasscarp
(Ctenopharyngodon idella)

Sequence

ACTCCTGAAACTTTACAGTGTGTACATGGCCCATTAGTCTTCTGATGCCTTCAGGAACATGGTGCCTCTGCAAAGTCTCAATGACTTTGTGGGGAATTGAGCTATAGGCATTTGCCAAGTCTAACACAGCACCACTAGGTTGCCCTCAGTTTCTCTGGCCTCCCTCAGAAGCTGTGTGATGACTCCTGTATGCTCCAAGCAGCCTGGTACCTTTGGGATGCCTCCCTTCTGGACAGAGGTGTCGATGTAATTGTTCCTCAGGAAGTACTCAGTTAGGCACTCTGCCAACATGCTGAAGGTTTTTCCTTCAACACCAAGCAAAGATATTATCCTAAACGAGTTGATAATAAAATAATAATAAAAATATTAATTCTGGTTGATAATTAAAAATAATTATAATAATTAAATTAAATTTATTTTATTTTAACTGAGTTTAATTTAGTTTAAATTTAAATTGTTTATCTTTATAGTTTGGAACATGGAGAACAGAAGAGAATCACACAAGGGCTACGGAAATATACATGTGATCTTACACTGGATCCAAACACAGCACACACTCATCTCATTCTGTCTGAGGGCAACACAAAGGTGACATATGTGAAAGAGAAGCAATTGTATCCTGATCATCCAGAGAGATTTGAGAACTTTGAGCAGGTTCTGAGTAGAGAGAGTCTGTCTGGACGCTGTTACTGGGAGGCTGAATGGAGTGGACAGGCTGTTATATCAGTGTCATATAAAGGAATCAGCAGGAAAGGAGGAAGAGAATGTCGGTTTGGACTCAATGAAAAGTCATGGATTCTGTTCAGCGCGGATAACAGATTCACTGCCTGTCATAATAATAAGAGAACAGATGTACCTGCCCCTTCACCTCCTTCTACTAGAATCGGCATGTTTGTGGACTGGCTGGGCGGCAGTCTGTCCTTCTACAGCGTCTCCGGCACCCTCACACACTTGCACACATTTCACTGCACGTTCAAAGAGCACCTCCATGCAGGATTTTTGCTTGACTTGGGTTCATCAGCATCTTTGTCCTCTTTTAGGACATTATACACCCAACTGGGTAAAAAAGAAAATTAAAAATATTTTGTTTCATATAAATTCAACTTAAACTACCTCAGAAACTTGAAAATGCAAATGCTGTCTTTATTTATGCACACTCATGTTATTCCAAACCTCTATGATTTTATTAAGATTAATGTTATGTTAATTCAAAGTTAAATAGCATACAGTTGAGGCTATAGCTAGAAGATGTAGCTAATGTTATTCTGTTGTATAGCAATGTTTTTCTATTTATAACTGTTGTAATTTATAATAAAGTTTTTTTTAACATCGTAAATAACGTATACATTGTTTTAATTGTTGTTTAAATTAATTCTGATATTTGCATACCTGTAAAACTTATTAATAACTGCCTGCGTTGTTTCTCATCTCAACAACCTGATGACTGTGTGCAAATGTAGTGTAAAAATGTTTTTTGTTTGTTTGTTGTTGTTTTTTTCCAGCAAAATATTTTTTAAATTTTTTTTTATGTTTTTTTTTTTTAGCAATATTATGATTTTGCTGAAATGTTCAGTTTATCTTCATTTCAAATATTTAAAACCATATTTTCAAATGCTTCTTTTTCTGTAAAGGAAACCTACAGCATAGTTGTAGTAGTTCTGTGTTACACAATATTATATTCAGTCCTAATAAGTGTTAAATTACGG

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
TU29025 lncRNA downstream 2078 1753239 ~ 1753460 (-) True G25712
TU29011 lncRNA downstream 24915 1728532 ~ 1730623 (-) True G25700
TU29001 lncRNA downstream 63477 1691294 ~ 1692061 (-) True G25690
TU28972 lncRNA downstream 64701 1689359 ~ 1690837 (-) True G25672
TU28987 lncRNA downstream 69330 1685172 ~ 1686208 (-) True G25687
TU28966 lncRNA upstream 147992 1905313 ~ 1907541 (-) True G25666
TU29061 lncRNA upstream 152969 1910290 ~ 1910523 (-) True G25744
TU28939 lncRNA upstream 179878 1937199 ~ 1944111 (-) True G25642
TU28935 lncRNA upstream 258936 2016257 ~ 2018609 (-) False G25640
TU28936 lncRNA upstream 258936 2016257 ~ 2018609 (-) True G25640
CI01000004_01626984_01627238.mRNA mRNA downstream 128300 1626216 ~ 1627238 (-) True CI01000004_01626984_01627238
CI01000004_01605140_01622364.mRNA mRNA downstream 133174 1604552 ~ 1622364 (-) True CI01000004_01605140_01622364
CI01000004_01554696_01564701.mRNA mRNA downstream 190837 1554656 ~ 1564701 (-) True CI01000004_01554696_01564701
CI01000004_01440447_01443088.mRNA mRNA downstream 312246 1439771 ~ 1443292 (-) True CI01000004_01440447_01443088
CI01000004_01404265_01425424.mRNA mRNA downstream 330114 1404265 ~ 1425424 (-) True CI01000004_01404265_01425424
CI01000004_01758554_01762415.mRNA mRNA upstream 1101 1758422 ~ 1762415 (-) True CI01000004_01758554_01762415
CI01000004_01773383_01774888.mRNA mRNA upstream 15607 1772928 ~ 1774942 (-) False CI01000004_01773383_01774888
CI01000004_01814534_01821755.mRNA mRNA upstream 56461 1813782 ~ 1821755 (-) True CI01000004_01814534_01821755
CI01000004_01833090_01839923.mRNA mRNA upstream 75693 1833014 ~ 1839923 (-) True CI01000004_01833090_01839923
CI01000004_01853673_01854481.mRNA mRNA upstream 95867 1853188 ~ 1855232 (-) True CI01000004_01853673_01854481
TU29027 other upstream 15719 1773040 ~ 1774941 (-) True CI01000004_01773383_01774888
TU30225 other upstream 1517112 3274433 ~ 3275721 (-) True G26788
TU31341 other upstream 3420906 5178227 ~ 5203724 (-) False G27746
TU31343 other upstream 3422672 5179993 ~ 5195103 (-) True G27746
TU31692 other upstream 3863062 5620383 ~ 5627514 (-) True CI01000004_05617072_05627369

Expression Profile

TU28961 Expression in PRJCA010000

Bar chart with 27 bars.
The chart has 1 X axis displaying categories.
The chart has 1 Y axis displaying values. Range: 0 to 2.
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TU28961 Expression in each Bioproject

Bar chart with 44 bars.
TU28961 Expression in each Sample
The chart has 1 X axis displaying categories.
The chart has 1 Y axis displaying Expression. Range: 0 to 150.
End of interactive chart.

Homologous

species RNA id representative length rna type GC content exon number chromosome id location
grasscarp (Ctenopharyngodon idella) TU155970 True 320 lncRNA 0.27 1 CI01000026 16176144 ~ 16176463 (+)
bowfin (Amia calva) TU155970 True 1536 lncRNA 0.50 6 CM030136.1 21941177 ~ 21953671 (-)