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RiceLncPedia: a curated knowledgebase of rice Long non-coding RNAs
Sequence

>Osa02LNT0155600.1

CATCTTGGGTAAAATTCACATCAAGCAAGAGGCCAAATAGGCACCACTTTCTTTACAATTTACATGGTTCAACAATTCTAATATATCAAAATTCAGAGTAAAAATAAGTTCACATGTGTTATGTCGACAGATGGTCCAGTACATAATAACAAGTTGAACAAAATGATAGGCAAAAAGGGAAGACTATGAACTATGGTATATATGCGCTAACCAATCTCTCGTGTGCTTGCTCTTCCCAAGTTTCTTTGGAGCAAATGCAAAGCAAGCTGAAAAAAAGGGCTCATCGATCACTCTCAGGAAGAGATCTTCAAAGTTCTCTGCCATTGCATAACCTTTCAAGGCCATTGGAACTGCAGAAGCACGTGTAGATGCTACATACCATGAGATGGATCAGGAAAGGAACTAATTCTCTACACAAAATAGCAGTGTGCCGGTTTTGCATTTGTATGCTGTCCAGAAGAAAAAGTCTCATCTGTAAAAGAGGTAAAATTTTCTGTGTGTACTGAGAAGGTTTATCTTTTCTCAGCTTGCAACCTCAACAGCCTCAGCTTCTCCATCACTGTAGTCTGCCCAGGACTTTGGATTTTCAGTCACGGCTGAACCATCTTCCGGGGTAATTGCACCATCTCCATCACCTTTGGAAGCTTCGGTTTGCTCAGGCTCCCCTTCGCCGTCTTTACTTTCCACATGGTTCTTGCCATCAGTGTCCTGTTTTTCACTCCCATTTTCAGTATCGACCCCACTGGTTGTATCATTTCCTTCAGGACTGGTCTGGCTAATTTCAGAAACTTGTGGAGATGCAGTTGCAGGTGATTCTACTATACTGTCTGAGGGAGAAGGAAGGCCATGAGGTGAAGCTTCAGTGCCACCTGGTGATGCTAGAGGTCCGTTTGGAGATGCTGGGTTGCCATTAGGACTCCGAGATTGACCTGGCACAAACTCGGCTGCGTTAGGGTTCATCACCCTAGTGGCAAATGTGTTTGCTTCGGTAAGGCCTTCACTGCTTGGCAAGGCAGACTTGTTACGAGGGCCACGGTGACCTGATCTGTTGTAGCCTCCAGCCAACCGTGGACCATAAGGGACTCTTGCGGTTGCAGATTGGTGAGGGTGTTTACGAAGAGGGATCGACAACATCGGGGGTACATTGGCTGGTGATGGCAGCAATCCTCCATGTTCTCTGAAACCTGGAATGGCCATTGACCCAAAAGCTGGAACAGTGGAGGGATTGAATGGAGCAGCAGCAGCAGAAAGCTTACTGGCCGTCTCTTTGGCACCTGGTGAATCATTCTTTTCACTTTCAGATGGTGAAGATTTCTCATTTTCGCCTCCACTAGACATCTGTTCTTGAGCATCCTCTCCTGCATCTCTTTCATCATCATTGGAGGAAGAATCATTTGCCTCAGTCACCATAGATGCTACTTCGTTTGGGGCATTAGCTTCAGTTACTGTTGTTAATGATTGAGATGACGATGATACATCTGAGGCTACAAGATCTCTTTTCTTCTCAGGTTGTGTCTCTGATTGATTTGATCCAGCCAAAACAACGGTTTGTTCGTCATCAGGATTGGAAGATTTGCCTTCACCAGTTTCTTTGGATCCTTGGGAAGTACTATCTTTTGGTGACACTTGAACAGCTCCATCTTTCTCTTTAGAAAGGTGACCATTGCTTTCCTTTGGGGCCTTAGCAGTTTCAATATTTGCACCTGCATCGGTTGCATCCTTTTCCTCCGTTTGTGCATCATTCAATGCTTTGACAAGAGTCCCTGGTGCAGCTATTGCAACTTCCTTGTATGATAGTGCCTTCCTTACTGTTTGACTGGCAATTGGTGCTGAAGACAGGACTGCCTTGGCAGCTGCTGGGGTGGTGGCAGGGCTTGCTGACAGAGAGTTGGGATTGGAAGAATTCTCCGCACTGTTTGATGATATAGCAGGGCTGCCTGGTTTGGAATTGAAGCTTGAACTCTTCACCAGTTTCTTTGCAGTTACAGCCTCACTAGGTAAAACTCGAGGGGAAGAGAAGTTTGATGGAGCTCTTCCTTTGTATCTTCCATTCTCAGTATTGTTTAGTGCATTTGTGTTGATCTTTGCTAGATTCGGCCTCCTTGCACTTACACCAGTTTTGCGGTTCCCAGTGGATCGTCCCTTTGGAACAGCTTCTTGCCACCCTTCATCCGACGTGTACTCTTCAGTAAAATCATCTTGAGGTATACGGCTTAAGGTGTTACCTGGTATTTCTTCTTTCAGTTTCTCTTTCTGAATAAACGTTCCATTCTCTTTGACTTCAGAACTTTCCTTCTCAATTAATGAATGGTCACTTTTAGGTGGTGGGCTCCTTTGATCTTCATCATCGACTACTTCAGATGGATTTTGCCCGGCACGACCTTTGATCTTAGCGCGGGCTTGTTTCTTTTGCATTTCCTTAGCCTTGAGTTCATCATCTGGATTGATATAATCCAGAAGATCTGATACACTCAGGTGGCCTCTGCTTGCTATTGAAGCATCAGGCTTTGGAGTACCATTACGTGCTGCTTCCTGCTGCTCTAGTGCCTTGGACTCAAAATATTCAAGCCAAGCAGCAGCATCCTGTGTACGAAGATCTTCCGACCCAAGCTTTGCTTGAAGTATTCGTAAAGTGGTTTTTTCATGTTGGACACTTAAAGAGTATGCTTCCATTAAAGACAGAGCAATAGCAATAGCATGGTAACTAGCAGCAGTCTGTATGTGATCAGCACCAAGCAACCTCTTGTTGCATTTTAGAGCCTCATGAAGGTAACGAAGTGCAACATGAACATTACCCAGCCCTTCTTCCATCATTGCCACATTAATATAAGTTGCAGCAGTATTAGGATGAGAGGGTCCACATGTCAGGTGCAAAAGATATAGGGCACGATTCACATACTTTAATGCCAATTCTGTATGCTGCAGGCGGTAATAGAAAACTGCAAGATCTCCATAGCTTTTCATTGTATCTGGATGATCTAGTCCAAGTTCTCTCTCATTTATATCTAAAGCCTTCTGTTGATAGATTGTTGCCTGGTTGAAGTCACCAGTATGATAAAGCACTACTGCCAAAAGGCTGTATGCTCCTGCTGTCATTCTGTGATAAGGACCACAAACAGCAACAAGTTTTGCAAGAGCCTTTGTGCCATAGTTAACAGCATCCTCAAGCTTTCCCTTGTCCAGGAAAGTCTTGGATGACTCCAACAGGGTTCGACCGTCTGCTGATGAGCATGCAACATGCTTGTAGATAGGAACAATGCTGATTATATCTGACCTTCTGAATGGATGTGGCATATCCATGTCATAATCTTTGGTAACTAGCTCAAGTCCTACCTTATGGCAGATACCACGAAGGATGGCATATTTTCTTAGATCAGCACGATATTCGTCTTTCCACGTCCAGCCAAATCTCTTTACTAGAAAGACCTCCAGCCACCTTTGCCTGAGATTGTTATCCTCATAGCACTTGCCATCGTTATTTTCTTCTGGAAATGGTCCCAATAAGATATTCAAACATGATGCAACCACCTCAGCCATGTCATTTATATCATGAACAGCTGAAATAACAGCCCGAAGTACGTGCTTAAATGCTCGAACTACCATTTCATGTATACACAAGGATTGTATATGTGGGAGCTTATCAGCAAGCTCAACCACTTGTCCTAGTGAGCGCATCTGGAGTCCCCTGGTGTGCATAAAATCTGTCAATGTCCTTCCATCAACAGGGGAAAGCTCAAGTGAACCAAAATCTGCTACCAATTTTGGCAGAGCTGTATCATCATAATATTTGTGCGCCATCTCAATTAATTCATCAGGTGACTTAGCATGCAGTCCAGTTTCAGATTCCTTTAGTCTCTGGAAAGCAGCTTCTGGAAGCCATCTCTGTAGAATTGCCTCATTATCCTCCTTTGTGCTGGAAGAGTTGACTGTTTGCGCATCATTTGTATTTGTCGAAGTATTTTCTTTTGTGGATGCACCTTTTCCACTCTTTTCATCTGTCTTCTTCTTGATCTCCTTCAGCTGACCAAACTGTTTCCCCAGACCTTTCACTGTAGGAACATCCTTGGTCTCCTCATTTTTCTTAGTGTCGGCCTTCTCAGAAGTCTGATTCTGTAGGTGCTGCACCCAGCAAGCTCCAAGCTCCCATCTTATTGGTCTTGTTTCTCTTGGAGCTTCACATTCAAGCTTCTGCAGACTATCTGTCATTATCTTACGGACAAAATTTGTACTATATTCACTCTCTTGAGGAGAACTTTGCAACCGCTGAACTCCTCCAGATGGTTGAATACATGGTTTATGAAGCAGCATCCTTAAGCTATTGACATTCAGTGCGTTGCTACCTCCTTCAGGCTGATCTTCAATGTCAATATCATGTTGTGCTAGAGAAACAGTTGTCAGTTGAGCATCTGCTGGAACTTGAACAACAGCTGTGTATCCACAATGCTTCACAACCACCACACCAAGAGTAGCAGTATCATGTACTGTTGCACTCTCGTCAGCAGTGATGCCCTTCAACAGATTTCTCTTAGCAAGTTCATCAGACAGCATTCCTGGAGCTTGACTTCCATCTAACTTGACATCTAACTTAGAACTTGCATCCGCTTTGTCCTTTGTGACTGTTATTTTCATATCTCCAATTTGTTGCGTGTGCAAATCTGGATTTGTGGTGTCATTCGGTGTTTCAAGTGAACTCTTGTCAGGGACCATTTGCTGAATAGCTGCAACAGCTTTAAGAACTGCAACATCTACAAATAAACTATGGAGTAGGAAAGCCTTCCTGTCTCGGATTTGCCTCTCCTCAGCTGTTTTGCAAGGCATTGCAGCCAGTATGGCAAATTCTTTTGCCCATGGCCTATGGTCATGTTTTCCATCTCTTCCCTGACCACCACCATTGCTACCCCATGTTTCATCTTCAGTTGGAAGGGGTGGAAACACCGATGGCAAATCAGCAACAGCAGGAGGGACCACCCAAGTGTTTGACCGGAATCCATAAGGAAGATTTCCAAACTTATTATGCTCAACAAAAGCCTTCATAAGAGCCTTGTAAGCTCCATCAAACGCCCGGCTCGTCTGCTGCAACAGCCCAACAAGGGAGTGGCTGATGAGCGCTCGCTTCCCTGCTGGATAGAATCCAGCTTTGGAGGCCACGATGGTCACCGGCTTCCCACTACAAACCCTTACATCGATCTGGAAGAAGTCGTCCTCTGTCTTGTCATCAACGAATGGGCGCGTCGACCTCCTAATATAATGGAGGGGCGGGGAGAGGTGGGAGAAGGAGAAGAACTCGTAGAACTGTCCCAGCTTCGGCGGCGGGTACATCGGCTCCTCTCCTCCACCGCCTCCGGCGCCAACGCCGCCGCCGCCGCCGGCGGGCGACCCGGGGGTCTTGGCGGCGTCGGGCGACGCCGGCGGGGGCGGTGGCGGTGGCGCATCGGGAGACGACGGCGATGCGGGCTTCTGCTCGGGCGCACTCTTCCTCGGCCCGAACGCGGCGGTGCAGGCGACGATGTCGAGCAGCCGCCGCACGTGCGCCACGGCGAGCTCCTCCGTGTAGCCCTCCTCGACGATGCTGACGTGGCACGGCTTCAGGGAGGCGACCTCCACCGTGTCCTTGAGCTGGGCCCCACGAACCTCGTGGGACAGGGAGTAGTTGGTGAGGTGGCATGTGTCCACGTGGACGGCCAGGAGCTTCCGGACGTCGAGGATCTTGTCCGTTGATATGCCCTTGAGCGTCAGCTGCGTGTAGTCCGGCGTCTCAACGGTGACGTCCAGCACGGTGGGCAGAACTTTCTCTTCCTTCTTCTTCTTGTCTCCCTTGGCCTTGTGCGGCTTGGCCTTCCCTGCCTTGGGCGCCATGGCTGGCGTCCCTCAAGCTAATTAGCTAAGCTAAGCTAATGAATTGAAACCTCTCGATAATCTCGTTCTTGTCAGAAACCAATCAAGCGAGACGGGATTAAGCGGCAGCTCTACGTTGGCCTTAGCATTGCAGAACTGCAGGTCGCTTAGCTTAGCGCTTAGGCAGGAGATAGCGAGCGAGGGAGGCAGTGGAGAGGGAAGCTAGAGGGTGAGAGGCGATAAGAGGATAAGGGATATATAGC

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.647783
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa02LNT0155600.1 2 8810797 A C
Osa02LNT0155600.1 2 8814412 C T
Osa02LNT0155600.1 2 8810111 A G
Osa02LNT0155600.1 2 8810605 G A
Osa02LNT0155600.1 2 8811010 A G
Osa02LNT0155600.1 2 8811811 G A
Osa02LNT0155600.1 2 8812476 T C
Osa02LNT0155600.1 2 8813006 C T
Osa02LNT0155600.1 2 8813118 G A
Osa02LNT0155600.1 2 8813544 A G
Osa02LNT0155600.1 2 8813861 T C
Osa02LNT0155600.1 2 8814428 C T
Osa02LNT0155600.1 2 8814884 G A
Osa02LNT0155600.1 2 8815231 G A
Osa02LNT0155600.1 2 8815618 C G
Osa02LNT0155600.1 2 8815894 G A
Osa02LNT0155600.1 2 8816274 C T
Osa02LNT0155600.1 2 8816785 A T
Osa02LNT0155600.1 2 8817363 A C
Osa02LNT0155600.1 2 8817564 A G
Osa02LNT0155600.1 2 8817685 C T
Osa02LNT0155600.1 2 8819534 A G
Osa02LNT0155600.1 2 8819540 C T
Osa02LNT0155600.1 2 8819607 T C
Osa02LNT0155600.1 2 8819633 G A
Osa02LNT0155600.1 2 8819662 T C
Osa02LNT0155600.1 2 8819773 T C
Osa02LNT0155600.1 2 8820051 G T
Osa02LNT0155600.1 2 8820118 A T
Osa02LNT0155600.1 2 8820119 A T
Osa02LNT0155600.1 2 8820315 A G
Osa02LNT0155600.1 2 8820553 T A
Osa02LNT0155600.1 2 8820775 T C
Osa02LNT0155600.1 2 8810373 G A
Osa02LNT0155600.1 2 8815686 G A
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa02LNT0155600.1 osa-miR5804 Cleavage 4.0 15.964 1 21
Osa02LNT0155600.1 osa-miR5837.1 Translation 5.0 18.205 1 21
Osa02LNT0155600.1 osa-miR818f Translation 4.0 21.425 1 21
Osa02LNT0155600.1 osa-miR166a-5p Cleavage 5.0 13.396 1 21
Osa02LNT0155600.1 osa-miR166c-5p Cleavage 5.0 13.396 1 20
Osa02LNT0155600.1 osa-miR166e-5p Cleavage 5.0 13.396 1 21
Osa02LNT0155600.1 osa-miR395b Cleavage 3.0 17.878 1 21
Osa02LNT0155600.1 osa-miR395d Cleavage 3.0 17.878 1 21
Osa02LNT0155600.1 osa-miR395e Cleavage 3.0 17.878 1 21
Osa02LNT0155600.1 osa-miR395g Cleavage 3.0 17.878 1 21
Osa02LNT0155600.1 osa-miR395h Cleavage 3.0 17.878 1 21
Osa02LNT0155600.1 osa-miR395i Cleavage 3.0 17.878 1 21
Osa02LNT0155600.1 osa-miR395j Cleavage 3.0 17.878 1 21
Osa02LNT0155600.1 osa-miR395k Cleavage 3.0 17.878 1 21
Osa02LNT0155600.1 osa-miR395l Cleavage 3.0 17.878 1 21
Osa02LNT0155600.1 osa-miR395s Cleavage 3.0 17.878 1 21
Osa02LNT0155600.1 osa-miR395t Cleavage 2.5 17.878 1 21
Osa02LNT0155600.1 osa-miR395t Translation 4.5 17.855 1 21
Osa02LNT0155600.1 osa-miR395c Cleavage 4.0 17.878 1 21
Osa02LNT0155600.1 osa-miR395c Translation 4.5 17.855 1 21
Osa02LNT0155600.1 osa-miR395a Translation 4.0 17.878 1 21
Osa02LNT0155600.1 osa-miR395a Translation 4.5 17.855 1 21
Osa02LNT0155600.1 osa-miR395f Cleavage 4.0 17.878 1 21
Osa02LNT0155600.1 osa-miR395u Cleavage 4.0 17.878 1 21
Osa02LNT0155600.1 osa-miR395u Cleavage 4.5 17.855 1 21
Osa02LNT0155600.1 osa-miR396a-5p Translation 4.5 19.274 1 21
Osa02LNT0155600.1 osa-miR396b-5p Translation 4.5 19.274 1 21
Osa02LNT0155600.1 osa-miR396c-5p Translation 4.5 19.274 1 21
Osa02LNT0155600.1 osa-miR399d Translation 5.0 20.927 1 21
Osa02LNT0155600.1 osa-miR399i Translation 4.5 20.927 1 21
Osa02LNT0155600.1 osa-miR399j Translation 5.0 20.927 1 21
Osa02LNT0155600.1 osa-miR172a Translation 5.0 18.846 1 21
Osa02LNT0155600.1 osa-miR172b Translation 4.0 18.846 1 21
Osa02LNT0155600.1 osa-miR172c Translation 5.0 18.846 1 21
Osa02LNT0155600.1 osa-miR172d-3p Translation 5.0 18.846 1 21
Osa02LNT0155600.1 osa-miR426 Cleavage 4.0 17.01 1 21
Osa02LNT0155600.1 osa-miR395m Cleavage 3.0 17.878 1 21
Osa02LNT0155600.1 osa-miR395n Cleavage 3.0 17.878 1 21
Osa02LNT0155600.1 osa-miR395p Cleavage 3.0 17.878 1 21
Osa02LNT0155600.1 osa-miR395q Cleavage 3.0 17.878 1 21
Osa02LNT0155600.1 osa-miR395r Cleavage 3.0 17.878 1 21
Osa02LNT0155600.1 osa-miR815a Cleavage 5.0 11.315 1 21
Osa02LNT0155600.1 osa-miR815b Cleavage 4.0 17.326 1 21
Osa02LNT0155600.1 osa-miR815b Cleavage 5.0 11.315 1 21
Osa02LNT0155600.1 osa-miR815c Cleavage 4.0 17.326 1 21
Osa02LNT0155600.1 osa-miR815c Cleavage 5.0 11.315 1 21
Osa02LNT0155600.1 osa-miR1424 Translation 4.5 17.37 1 21
Osa02LNT0155600.1 osa-miR1426 Cleavage 5.0 20.389 1 21
Osa02LNT0155600.1 osa-miR1850.1 Cleavage 5.0 19.399 1 21
Osa02LNT0155600.1 osa-miR1857-3p Cleavage 5.0 18.388 1 21
Osa02LNT0155600.1 osa-miR812g Cleavage 4.5 12.919 1 24
Osa02LNT0155600.1 osa-miR812h Cleavage 4.5 12.919 1 24
Osa02LNT0155600.1 osa-miR812i Cleavage 4.5 12.919 1 24
Osa02LNT0155600.1 osa-miR812j Cleavage 4.5 12.919 1 24
Osa02LNT0155600.1 osa-miR396f-5p Translation 4.0 19.851 1 22
Osa02LNT0155600.1 osa-miR396f-5p Translation 4.5 17.315 1 22
Osa02LNT0155600.1 osa-miR2118h Translation 4.0 15.003 1 22
Osa02LNT0155600.1 osa-miR2118k Translation 4.0 15.003 1 22
Osa02LNT0155600.1 osa-miR396g Cleavage 5.0 22.384 1 21
Osa02LNT0155600.1 osa-miR396g Translation 5.0 17.661 1 21
Osa02LNT0155600.1 osa-miR396h Cleavage 5.0 22.384 1 21
Osa02LNT0155600.1 osa-miR396h Translation 5.0 17.661 1 21
Osa02LNT0155600.1 osa-miR396d Cleavage 5.0 22.384 1 21
Osa02LNT0155600.1 osa-miR396d Translation 5.0 17.661 1 21
Osa02LNT0155600.1 osa-miR395y Cleavage 3.0 17.878 1 21
Osa02LNT0155600.1 osa-miR5524 Cleavage 5.0 20.382 1 21
Osa02LNT0155600.1 osa-miR172a Translation 5.0 19.59 1 21
Osa02LNT0155600.1 osa-miR172d-3p Translation 5.0 19.59 1 21
Osa02LNT0155600.1 osa-miR815a Cleavage 4.0 17.326 1 21
Osa02LNT0155600.1 osa-miR1432-5p Cleavage 5.0 18.23 1 21
Osa02LNT0155600.1 osa-miR1428e-3p Translation 4.5 13.343 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa02LNT0155600.1 2 qLRS-2 Resistance or Tolerance Drought tolerance RM322 RM324
Osa02LNT0155600.1 2 nan Resistance or Tolerance Drought tolerance RG83 RG171
Osa02LNT0155600.1 2 qLER-2 Morphological trait Culm/leaf R2344 R712
Osa02LNT0155600.1 2 qPH-2 Morphological trait Dwarf RG324 RG83
Osa02LNT0155600.1 2 qEML-2 Morphological trait Seed R2344 R712
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