\
RiceLncPedia: a curated knowledgebase of rice Long non-coding RNAs
Summary
Sequence
Coding Potentia
Genome Browser
Expression
Variation
Sequence

>Osa11LNT0104800.2

GTTTCTCGAAGGAAATCGGGATATTTCATATTTCTGGTGAATTACATCATATCCACGCTTACATCAGCTATTACTATCACGGAACCCAGCGCCGCACTAACTGCGGCAGTAATTCTGGTTAATTTTTTCTGCGAAAGGAAGATAAAATTGAGCCATACAGCAAGATTGGTATGATGTTTTCCATTGTTACATCCACACAAAGACAAGAAGTCGATATGAGTCAGAACTATACCCTGTATACATATGCCCCCCTACCAAAATCTTATGTACCGAAACTTTGCTCTAAAAATGAAGCAACATCTACCCTAAGGGGGCATTCACACCCAACTTAAGGAAATTCAATAGCACGCACCATTGCCCCAAAGCATGGTGGAAAATCATGAAAAATTTGTCATCATGAACAATGAAATCAAGTGCACTTCTGCATCCAAACAGCACCGGTAGAAAGGAATAGAGGCCACGGCACCCAAATGGCCAAAACTTGTTGCTGCTTTTCCCTGTTCGAGTTTAACTTCTCCATACTACATCTCTCTGTTGCTGCTTTCAGATTTGACACCACCAAGGGGCCAGCACAGTCAGAAGTGATTTCAATTGTAAATTCTCACTGGCTTCTCATAGGTGTGACGGTTCTGATTGGCTGTGTAGGCCCTTTTTGGTGCAGTATCAGCATGCTCCAAACCAAGATACTGCTCCCAGGCTCCATAGACATCTCTCCTCTGGAAACGGGCAGATACAACATCTGAATCTTGGAGGTAATCTGGCCGGTTCATGGATATGAAAGCGAATTTCCACTTGCAGAATTCCTCATCAGGGACTTGGAGTTTTTTCTGTATGCGCTCCTTTACTTCTGCTAAAGTCTCACCTTCACGGATAGCAAGATAAAAAGGATCTCCAAAGTTCTGAATCTGCTGATTCTGAAGAGGGTCTTTCATGAAGTGATAAACATGAATTAACCGATCATTTGGACCGAGATTTTTCTCCTCCTCTGGAATCTCCTCAGCACGTAGTGTCCAGTACTGATCATTAATATTCTCTATCTTCTCATGGAGTGGAAAAATCTTATATATCTTGTGGTAAAAGACCTCTAACAAGCGCAATTCAGCACTGGGACTGGATAGTTCAACCTTTGTTTTCAAATCATTAATCACGTCTGCAATGGTGCTATTCTTTGGAAGCCTGATACTGTGAATCACAACCTCATCCTTTGTAGCATGGTGGAATGCAACTTTCAGGGTTTTCAGGCCCTGCAATTCTGGCAGTGGAATATCCAACACCTCATAATACAATATGTCTGATGTCTGATTATAATGAATGAGCATGTCCAAAAGATGCTCCACTCCCCGATATCTGATAGGTTGCGGTTTAGGCTGCTGCGAATAGCAGTTATGGGATGTTAGACGAATTTTCGCTGGATCATCCACACCAAGCTGACGGGCAACTCTCTCAACAACATCATCATAGGTATGAAGTTTTGACAATTCCAAAGAAAAGTCATCATCCTTTGGTTTCTCCAATAACCGAAAGTGCACAACCTGCCTATTATGAACATACTCCAGATACGAAGGGACATCTGGATAACGCATTTGAGTGTCACTATCAGGTATAGGTGATTTTTGGAAACAGATGATGTCCCCATCTTCAAGCTGACTAGCACGGAAAGTGGCTTTTTTGTCAATATGTTCACACATCACATTTGGCTCAAATTTAATTTCCTCGTAGAGCTCAATTTCTTCATTTGGCACAAATCCAGCCATTTCATTTAGTTTGGTCAAGATTTCTGAGGGTTTTCCCAAGGCCTTTACGAAGAGCCTCCCCACAAAACAGAGTTCTTCCTTTTCGGGATTATAGAGTTTGAAGAACAGAAGAATATCTTCCTTGCTCTTCTCAGGTGGAGGGAGAGGCCGCAAATCCGGGCCAAGTTCTACTTCCAAAAACAACTTCAGCTCAGCATTGTGTGCCTTATTCGATACCTCCCTCAGTTGTCCCACAGATTGTGTTTCTTCATGAGGACTCAATGGACGATTAGGCCTGTATGTGTGGTTCTGCCTCTTAGCCCACAACCAGAAGCGCTGAAATTGTACAGGGATGCCATACTCCTTTGCAACTTCCTCCTTGAAAGTGGTAAACAGTAACTGCTTCTGAATTCGGAAGCTACGAACTTTTTCATGGTCCACCAGGTCAAAATATATATCCTTGCCAATTTGCTCCTTCAAATTCTCATCTCGAGCCACCTTTATGATGGTATAAAGATGAGCTTCAGCCTTCTCTTTCTTTTTGTGTTCTTTCTCTTCTTGTTCTTTCTTCAACCTTACCACATATGAGAATGACCCATGGGGCCTGGGCCCACGTGTGTTGACACATGCGATGGTATTTTCCAATCGTGGTATCGAGGAAATTGGCCCAAGGAGGAGTGAGAATGCAAAACAACACATACCCTTAAATGCTCAGCAATGTCCTTCTCATCAACATTACACATTATTTTGTCCTTATCACTCTCACGGATGTAGACAAGCATGTAGGCATTTGAATACTTTGTGAATTTAAATGGAGCGTTGTTGAAACCAGGATTTATTTGAGGCAACTCTTCCTCACCCCCGTATTGCTCTTCAAGGGCCTTCTTAGTATCTTCTTTAGTTACACGCTCATCATCAAATTTATACCATTGATCTGATAGCGTTGGTCGAATGAAGGCATAGTAGTGACCGCCATGTACTCCTCCACTATGAACAAGAACACTGTGAAGAGCATAAAGGTTTCTTATACTTCTATCTGCATCTGGAGCAAGATATTTTCCATCATCTCTATCCAAATCAAGTTGCAAAGGGAATTCATAGCGGTCATTAATCTTAACCATGGTATCTCTCATATAGTCGTACTCAAAACGCTTCAGTTGAAGTTGCAAAACTGGGGGGAAATCAAGGAACAGAACACCCTTTTTCGCATCCTGTAAACCATGATTCTCTGCATGATACTTATTATCACCTTCGAGGCGCTCAACTTCAACATATTTATCAAACGATGCATACACATCACGACAACCTTTAACATCAAGTTGAAGGTCATAAAAGGACTCCTTCCTGTTGGATTTATAGTCAACATTTATACACTCTATATAATTGATGTGGTGACCTTCGAATAACTTTTCAATCGTTCCCTCTACGACAGTTCTCTTCATCTTATCTTCAAGTTTCTCACAGAGAACTCTGTTGAGCTCTTGTACATCATGTTGCATGAAGGAATCATATGTGTCCCATCCAAAAGATTTGGTCAGCTCTTTGGTGGCTACACTATTGTCACTATACTGGAGCTTGTAGAAAAGGCTCTGCAATGCCAACGGAATACTCCCAGATGGCATATCATTTTCGGTGGTTGGCATATGATACACAGCCTTCCTGAAGTATGGTATATGGTATAGTGTCTGTAGTAGAGAGTTCATGTAACAGGTAGCTCCTTGGTTCTTCAGGCCAACGTAACCTGTTTCTTTTTTTGAATCATATGTCCAATAATCAACCATTTTGCGGACAGCAACCTCAGCCTCCACAACAACAGTATCATCGACAAGGTATCCTCTACTTGGATCATAGAGCTCACTCAAAGGCATAAAAGATGTGAAACCCCAATCACTCTCACGTGCATTAAATTGATGCTGAGTATCTTTGCGTATCGTATACTTCTGTTGGATCTGGTTGACAACGGCCAAGCTAAACTGAGCATATCGGCTCCAACCATATGGGAGGTTAGCAGAGTCGGCAACATCCAAGTACATGGAGAAATGGTCCACGTTGTTCCCCTTAGGGAAAATGAGCACACGCCATTTGTACCCGCCAACGACAAACGCATCCGAGTAGTGCTTCTTCGCATTGATCCGGGTGAAGTTCTCGATCGTCCACGTGAACCGCGACGTCTGCGGGTCCTCAGCTGGCTGGCTCTCCGCCGTGCTAGCTGCCTCCGTTTGCGCAACCACTTCCATGGGCTGGGCGGCGTCAGCAGCGACGAGCTCCTGGTGAGGCACGAGCATCTCGTCCTCCTCCGGCTCGAGCGGGGGAGGCGTCATCATAGTCATGGAGAGGGGCGCCTGCAGGTCGTCGGCGTCGGTGAGAGCGGTGGCGTACGGCCTCCGCGGCGGCGGCGGCGGCGGCGGCGGCGGAGAGGAGAGCAGCGGGTGGAGGTGGAAGCAGCGAGTCGGGGGCGGAGGAGAAGGGAGGGGGGAGTGCGACGAGGAATGGAGGAGTTTGGGAGTTTTGGAAGGTTGGG

Coding Potentia
Explanation CPC Score
noncoding -1.14474
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa11LNT0104800.2 11 21503676 A T
Osa11LNT0104800.2 11 21503749 A G
Osa11LNT0104800.2 11 21502810 T C
Osa11LNT0104800.2 11 21500599 A G
Osa11LNT0104800.2 11 21500647 C T
Osa11LNT0104800.2 11 21501266 A G
Osa11LNT0104800.2 11 21501645 C T
Osa11LNT0104800.2 11 21501665 A G
Osa11LNT0104800.2 11 21501677 T G
Osa11LNT0104800.2 11 21502281 C T
Osa11LNT0104800.2 11 21502681 T C
Osa11LNT0104800.2 11 21502759 A T
Osa11LNT0104800.2 11 21503991 T C
Osa11LNT0104800.2 11 21504517 T C
Osa11LNT0104800.2 11 21504933 A C
Osa11LNT0104800.2 11 21504956 C A
Osa11LNT0104800.2 11 21505080 G A
Osa11LNT0104800.2 11 21505325 A G
Osa11LNT0104800.2 11 21505539 G A
Osa11LNT0104800.2 11 21505652 C T
Osa11LNT0104800.2 11 21505711 T C
Osa11LNT0104800.2 11 21505987 A C
Osa11LNT0104800.2 11 21506016 A G
Osa11LNT0104800.2 11 21506064 A G
Osa11LNT0104800.2 11 21506175 A C
Osa11LNT0104800.2 11 21506280 A G
Osa11LNT0104800.2 11 21506627 T C
Osa11LNT0104800.2 11 21507507 A T
Osa11LNT0104800.2 11 21507540 G A
Osa11LNT0104800.2 11 21507930 T A
Osa11LNT0104800.2 11 21508206 C A
Osa11LNT0104800.2 11 21508632 T G
Osa11LNT0104800.2 11 21508714 A C
Osa11LNT0104800.2 11 21508755 T C
Osa11LNT0104800.2 11 21508800 G A
Osa11LNT0104800.2 11 21509887 G T
Osa11LNT0104800.2 11 21510069 G A
Osa11LNT0104800.2 11 21510578 A C
Osa11LNT0104800.2 11 21511018 T G
Osa11LNT0104800.2 11 21511112 C T
Osa11LNT0104800.2 11 21511585 T C
Osa11LNT0104800.2 11 21512334 T C
Osa11LNT0104800.2 11 21512488 T C
Osa11LNT0104800.2 11 21512812 T C
Osa11LNT0104800.2 11 21512817 T A
Osa11LNT0104800.2 11 21513015 G C
Osa11LNT0104800.2 11 21513097 A C
Osa11LNT0104800.2 11 21513305 T C
Osa11LNT0104800.2 11 21513491 A G
Osa11LNT0104800.2 11 21513667 T G
Osa11LNT0104800.2 11 21513676 T C
Osa11LNT0104800.2 11 21514376 A G
Osa11LNT0104800.2 11 21514641 A C
Osa11LNT0104800.2 11 21514714 G T
Osa11LNT0104800.2 11 21515035 A T
Osa11LNT0104800.2 11 21515891 G C
Osa11LNT0104800.2 11 21508546 C T
Osa11LNT0104800.2 11 21505407 G A
Osa11LNT0104800.2 11 21503258 T C
Osa11LNT0104800.2 11 21511167 G A
Osa11LNT0104800.2 11 21511344 C T
Osa11LNT0104800.2 11 21515922 A G
Osa11LNT0104800.2 11 21516374 T C
Osa11LNT0104800.2 11 21501710 T G
Osa11LNT0104800.2 11 21507867 C T
Osa11LNT0104800.2 11 21508363 A C
Osa11LNT0104800.2 11 21513109 C T
Osa11LNT0104800.2 11 21502878 A G
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa11LNT0104800.2 osa-miR6245 Cleavage 4.5 13.19 1 21
Osa11LNT0104800.2 osa-miR6254 Cleavage 5.0 12.706 1 21
Osa11LNT0104800.2 osa-miR395b Cleavage 4.5 18.281 1 21
Osa11LNT0104800.2 osa-miR395d Cleavage 4.5 18.281 1 21
Osa11LNT0104800.2 osa-miR395e Cleavage 4.5 18.281 1 21
Osa11LNT0104800.2 osa-miR395g Cleavage 4.5 18.281 1 21
Osa11LNT0104800.2 osa-miR395h Cleavage 4.5 18.281 1 21
Osa11LNT0104800.2 osa-miR395i Cleavage 4.5 18.281 1 21
Osa11LNT0104800.2 osa-miR395j Cleavage 4.5 18.281 1 21
Osa11LNT0104800.2 osa-miR395k Cleavage 4.5 18.281 1 21
Osa11LNT0104800.2 osa-miR395l Cleavage 4.5 18.281 1 21
Osa11LNT0104800.2 osa-miR395s Cleavage 4.5 18.281 1 21
Osa11LNT0104800.2 osa-miR395t Cleavage 4.0 18.281 1 21
Osa11LNT0104800.2 osa-miR395a Cleavage 4.0 18.281 1 21
Osa11LNT0104800.2 osa-miR164c Cleavage 4.5 18.751 1 21
Osa11LNT0104800.2 osa-miR166k-5p Translation 5.0 17.537 1 21
Osa11LNT0104800.2 osa-miR169i-5p.2 Translation 3.0 21.887 1 22
Osa11LNT0104800.2 osa-miR169i-5p.2 Translation 3.0 11.5 1 22
Osa11LNT0104800.2 osa-miR169i-5p.2 Cleavage 4.5 8.758 1 22
Osa11LNT0104800.2 osa-miR435 Translation 5.0 14.572 1 20
Osa11LNT0104800.2 osa-miR395m Cleavage 4.5 18.281 1 21
Osa11LNT0104800.2 osa-miR395n Cleavage 4.5 18.281 1 21
Osa11LNT0104800.2 osa-miR395p Cleavage 4.5 18.281 1 21
Osa11LNT0104800.2 osa-miR395q Cleavage 4.5 18.281 1 21
Osa11LNT0104800.2 osa-miR395r Cleavage 4.5 18.281 1 21
Osa11LNT0104800.2 osa-miR1853-5p Translation 4.5 5.227 1 24
Osa11LNT0104800.2 osa-miR1872 Cleavage 5.0 15.885 1 24
Osa11LNT0104800.2 osa-miR2122 Translation 4.5 16.374 1 22
Osa11LNT0104800.2 osa-miR2928 Translation 5.0 10.456 1 20
Osa11LNT0104800.2 osa-miR395x Cleavage 4.5 12.509 1 21
Osa11LNT0104800.2 osa-miR395y Cleavage 4.5 18.281 1 21
Osa11LNT0104800.2 osa-miR3979-3p Cleavage 3.5 20.797 1 20
Osa11LNT0104800.2 osa-miR156f-3p Cleavage 4.5 18.624 1 22
Osa11LNT0104800.2 osa-miR156h-3p Cleavage 4.5 18.624 1 22
Osa11LNT0104800.2 osa-miR156j-3p Cleavage 4.5 18.624 1 22
Osa11LNT0104800.2 osa-miR156l-3p Cleavage 4.5 18.624 1 22
Osa11LNT0104800.2 osa-miR529b Cleavage 3.0 7.88 1 21
Osa11LNT0104800.2 osa-miR5160 Cleavage 5.0 14.479 1 22
Osa11LNT0104800.2 osa-miR535-5p Cleavage 5.0 7.108 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa11LNT0104800.2 11 qDLR11 Resistance or Tolerance Other soil stress tolerance RM2596 RM286
Osa11LNT0104800.2 11 Xa21 Resistance or Tolerance Bacterial blight resistance CDO534 RZ537
Osa11LNT0104800.2 11 gpl11.1 Resistance or Tolerance Drought tolerance RZ537 RZ900
Osa11LNT0104800.2 11 chs Others Others nan nan
Osa11LNT0104800.2 11 gw11.1 Resistance or Tolerance Drought tolerance RZ537 RZ900
Osa11LNT0104800.2 11 yld11.1 Resistance or Tolerance Drought tolerance RZ537 RZ900
pre-miRNA
Transcript ID Pre-miRNA Identity(%) Alignment Length Pre-miRNA start Pre-miRNA end E-value Bitscore
GWAS
Transcript ID Chromosome Locus Trait Value Plus Minus