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

>Osa02LNT0189100.2

ATGATCTCTTCGTACTGATTTTTTTGTGGCTCAAATTTGTTGGTATTATAGATTAAAACAAAAATCTAGGTTTACAGAACCAATCTTAGCATGGGGTTATGATCATGTTTCTTACTATGAGTGGCCGGAGTGGTTCATGGTCTTCTGAGTTTTCCCTGATGACCAAGGATGATAGCACCACGTTGAAGACGATAGGATCTTATTTATTCTTTTGCCTTGAATAGCTCCTTTCATTAGAGGCTTAGAGTATTGAAAAAAAAAATCCCAATCTATCAGCTTTCAGGAGATGCGATAGCCCTTGCAACAGGAAGAGGAACATCGATGTACCGTGGCCATTCGCCTTGACCAACACAAGATATTATTTAAGTTCATACCCTTGCAATAGGAAGAGGAACATCGATGTACCGTGGCCATTCACATATTGTCTCATACATCAGCTCAGCCAGATCATGAACAGTATAAATCTCTGGTCCACCAAGTCCGTAGCTCTTTCCCATGCTGGTGCCATCATCCTTGAGGGAGTTGACAATAGCAGCAGCAACATCCACAACATAAACAGGCTGAATCTTTGTAGACCGGGAATCAATTTTTAGCAAACTGTACCCATCTGTTCAAAATCCGATCTTCTGTGCCAATCATAGTTGCAGGCCTCATAATTGTAGCCTCAGGAAATTCCTTCAACACAGATTCTTCCCCAGCAGCCTTGGCCCTCAGCATTCTAGAAGAAGAGGCCGATGCTCCTAGGCAAGAAACCTGGATAAATCTCATGAAACCCCCATGCTCCTTTGAAACCTTTATTTTTACTGACCAATCAATGAGTTGTTGCCGGCTCTGTGATAATCTTTTGAACTTGAGGGCCTCAGCATTCTGTTAGGACCTAGCACTGAGTGTATAGAACTCGTATATGAATAGTTGTAAAAATGTAATTATAAGTTTTAAATATTGCATTGATAATACATAGAATCCAAGGCGCATTCCTAGACGGATATAGTATTTTATAGACATAGTTAACAAATCTAAAAGTTGTAGTTTTGATAAGTAGTGGATGCAGAGTATGTGCAAGAAGGTGGGGGTTAATAAAGATGAGGTAGTTTTTTTTTTCCACCTGTAGTAATTGTGGCTATGAAGTGTTTGTTTGCAAACAATACAGTGGGCTGTTGTGGTGCTAACATCTTTTTTTAATTAGTAATTGTATGCGAATGTGGAAAGTGTAGTGTATCCGAACATTATTTTGTAGGATGTAACTTTACTAAGAAAACCTACATCCTAAGTTTCATGCATACTACACACATCATATATAAACTTCCCGTGGGTCTATCTGGCTTGAATTTAACTCGATAAATTTTATCAAAAGGAAAATAATCTGATCTATCTTGATTATTTGAATAAGGTATGTGCTCTCTGCATTTACAGATAGACCCATTAAAGAACAAGGTTTTTTTGAAAATGAACTATGGAAAATGCACGGCCTGACTGAATCATTTACACTAAATCATAAGAACTGTGATCCGTTCAATGCAGAACTTCCTTTCTCAATTAGAATTTAGCTATGTTCTTGACAAACTGCAATATAAATTATCCGAAGGTACACAACTGGTGTTTATTATATTAAGAGCAAATATGCACATCTGCCATGGCATTACTTATGGAGTCTTGAATGGACTCTAGTGTTACTGATCCCAGGGCTTATAATCGTCACAGTAGGATACTTCAGCAGATGAGCTGACCTTCTCTTGGCAATCTGCTCCACAGTTGTCAAAGAACCAATCAAAATGTAATTTCAACCAAGACAGAGAGAAAGGAGAGAGAGGAAATGACGGGTGATAAGCTCAGGGTGATTCTTCAGAGTGCTAGTAGCAGCCAGAGATGAAGTACAAAGCAGTAGAACATCTCTTTCTGTTGATTATTCAGAGCAGCAGGGTAAAAAGTGAAACTGGATTAGGACACATTCCTACTTCAGAAAAGATAGGTGAAGAGAATATTTGCTGTACATTCTTCCGTGATAATTTCAGTTTGAAAGTGGATGGAGGCACAATTTAACCTTTGCAGCATACAACTCAGAATAGCACAGTACGATGCTTCACTGGAATGATTAATTTATATTTTGAACTCATGAAACAGTAAAAATTGAAGTACTCCAACACATTTAACCAGTCTGAACCAAAATAGTACACAGAGTAGAAATCAGGAACCATGGTTTGCAGAGCAATAAAGCATGAAAATTCAGCAAATATACTGAATATTTCAACATTGGCACAATAACAACTAACTTCAAGGAGACAAGGACTCAAGGAATAATCCCTGCAAGTATGTTCAACTGATAGGACATATACATTTCTGGAATGTAAATGAACTAAATTTGTTTGGCAAAATGAATTTGTCAGTAACATTTTAGAGCACTGCTGAGTGGGAAAAGCATTCAGCTGATCACTCTGACTAATTATGTGGGCAAAAAGCAATTTGAGAAGATGGTGACGGCTAAACTTATTATCTTAATTCGGATTGGTATTTTTTTAGCTATCATAGGTGGTTTTGTTTAGAGGTGTGGACAGAAGGTAGCAAAATTTCTTTGGGAGGCGGACTTAACAAAGTGTAGTCTGTTGATTTACGTGAAAGGATTTATCAAGAGTTAATATTGTGACAAACCAAATCTGGGTTCGTGATAATTAAGACAGTTAATGGAGCAAATCATTTTAGAATGATTCGTTGTCAGATTGTAAATCATGATATGTGTCACTAAAATAATCTAGACTCACAACATGTAAGTATGTGACTGCACTACCACACATCCTTGCACACAGAGTGAGAATTAATTAGTAGAGTGGTAGAGCATATATAATTAAAATGACAGGCTTGAGAAAAGGTGGTGCAAATCAACAGGGAAAAAATTGAATTAGGAGCAAACCTGACTTCTTTATCAAATCCAAAATGAGCCCCAAAGTAAAATGCCACACAGTATCCATGAATCACTACGGACAGCTATCAGGGACAACCAATCTTTCCAAGAACGTGCAAAGAATAGATTGGAAAATCACAGGTATGCCTGAAGGATCAAGTAACTTTTCATCTCGTTGTTTGCCACAAGATACATCTTGTTCACCAAATGAGTTGCATATAAAATAATTGCATCATTGAATTTTGCTCAGTGGTACGAATTATCGTGAAAGATATTATCTCCAATTGTTCAACAATAAAGGGAACTAAACCGATAGGGGATTATGTAATCCAAATAAACCTGCACTAGGAATAATGGAGATCTAGTGGAACAACGTCCTAGTTAGCCGAGAGGATGGATCCAGCAATTTCTTCATATATAGAAATGACGAGGATTGGGCCTGGCTGCATAGACAGCAGAGGCATATGCCACCAGCCCGTACTGCATCAGTGCCAATTCAGCGAAGAAGAAGGCCATGTGCTCCATCAGCATTCACCAAAAGAAATCTTGAGTACACGCTTAAACTTGTCGCTTAGCAATGAAATATAATCTGGTGGTAAACAGAAACAAACAAAAGCCATGGCTCTTTACCTCCTTGTCACTTTTGTTATCTGCAGACGCAGATAGCATCATAATGAAGACATATGGTGTAGGAATGGTGAGATTCCACTGAAGCTTATTCAGAATCCCCTTCTCCATTGCAAGAATCTGTTCCCTAGTGTATGCACTATCTGATATGAAGATGAAGTCGTTCACCTCTGGGGCCCAAATCTCCTCGTACTTGCAATCTATCAGCATGGCAGAAACGGCGACCAGTTGCAGCTCCCTCCGCTGCACTTGCTGCATCGAGAGAGAGATTTGTGGCGCACTTGTCGCTTGTGTGTAGGCGGTGCCGCCGAGCAGCAATTCCAGAGCTCCACGCCCCAGGACCCAGCCATCCTCGGAGGCCGCAGCGTCTCAAATAGCATTGAGGTAGACCACGAGGAACTTAGACAGCCGGTCGTATTCCTTCTCCCTCTCCGCCACCATCGCCCTCGACTCGCTGTTCGCAGCAGCGGCCTCCCTCGCCGGCTGCTTCTTGGTGCTTGAATCCTTATTTTTCTTCTTAGTTAAGATAATCTTCAAACCCAAAATCATCTAAGGAACCAGTCAGTGCCTCATATCCTAGCATAGATGACGGCAATGCACCAGGGGGCCTTTGGAACTTGGAGAGGATTTGGGCATCAAGATCCTTGCGGATGTTGAAGGCGGATCCGTAGATGGCTTCCGCGCCGAACCTCTTCTTGTCCGCCCAGAACTTGGCCTCCTTGTGGACGCTGGCCTGGAGCGGGTGCGGCGGCGCGAGGTCCCCCTTGACGCTGTCGTTGACGCCGAAGCGGACGACGTCGTGGTTCCCGCCGATCTCCTTCTTCACCACGCCGCCGCTCGCCATCGTCGCCTGCGAAGCTCTCTCTCTCTCTCTCTC

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.999634
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa02LNT0189100.2 osa-miR5797 Cleavage 3.0 16.307 1 21
Osa02LNT0189100.2 osa-miR5802 Cleavage 3.0 14.623 1 24
Osa02LNT0189100.2 osa-miR5815 Cleavage 4.5 11.354 1 24
Osa02LNT0189100.2 osa-miR7694-3p Translation 5.0 15.618 1 22
Osa02LNT0189100.2 osa-miR156c-3p Translation 4.0 10.912 1 22
Osa02LNT0189100.2 osa-miR156g-3p Translation 4.0 10.912 1 22
Osa02LNT0189100.2 osa-miR399k Cleavage 5.0 14.72 1 21
Osa02LNT0189100.2 osa-miR169i-3p Cleavage 4.5 17.952 1 22
Osa02LNT0189100.2 osa-miR1428a-5p Translation 5.0 12.648 1 21
Osa02LNT0189100.2 osa-miR810b.2 Translation 3.5 8.705 1 21
Osa02LNT0189100.2 osa-miR1442 Translation 4.0 15.865 1 20
Osa02LNT0189100.2 osa-miR1850.1 Cleavage 4.5 13.839 1 21
Osa02LNT0189100.2 osa-miR2875 Translation 5.0 15.271 1 24
Osa02LNT0189100.2 osa-miR2923 Translation 4.5 15.802 1 22
Osa02LNT0189100.2 osa-miR2928 Translation 4.5 14.324 1 20
Osa02LNT0189100.2 osa-miR1862f Translation 5.0 13.047 1 20
Osa02LNT0189100.2 osa-miR1862g Translation 5.0 13.047 1 20
Osa02LNT0189100.2 osa-miR5492 Translation 5.0 13.095 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa02LNT0189100.2 2 Hd7 Physiological trait Flowering R3393 R2511
Osa02LNT0189100.2 2 ss2 Physiological trait Source activity RM240 RM213
Osa02LNT0189100.2 2 nan Morphological trait Seed C747 C1445
Osa02LNT0189100.2 2 nan Morphological trait Shoot/Seedling RM250 RG256
Osa02LNT0189100.2 2 gn2.1 Morphological trait Panicle/flower RM250 RM208
Osa02LNT0189100.2 2 gw2.1 Morphological trait Seed RM250 RM208
Osa02LNT0189100.2 2 pl2.1 Morphological trait Panicle/flower RM250 RM208
Osa02LNT0189100.2 2 sn2.1 Morphological trait Panicle/flower RM250 RM208
Osa02LNT0189100.2 2 qCHR-2 Others Others RM263 RG520
Osa02LNT0189100.2 2 qDLR2-1 Resistance or Tolerance Other soil stress tolerance RM525 RM406
Osa02LNT0189100.2 2 qDLR2-1 Resistance or Tolerance Other soil stress tolerance RM525 RM406
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