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

>Osa03LNT0237300.2

CAGGAACGAAGGCCATGTTCAAGATCAAGCTTACAGGTTCAGAGTACATCCAACAAATTTGATTGTTTTTCAGGTTTAGAGTACTAACACAAGTGGTAGGAAACTAGTAAGGAACATAGATCTTGACAAGAATACAGGTATAAACACAAAAAAGCACTGCTGATCAGATTGCTACTCCAGTTGGCTTGCCCTTCAGTGAAACCTTCTTGGAGCTCCTTACAGGTGTCTTTCCTAGCCTGTGAATTGTTCCTTCCCCTGCTCCTTGCAAGCTATGTGATGCCTGCAATGTACACAAATCATATTAGGATTAAATTTGCAGTTAGTTGAAGGGAGATGTGATTGCCTGTTGTTTTGTATGAACAGTCGATGATGTTGCTCCATCAGGTTGCTTTCTTTTTCTATTAGCTCCTGTGACAAGAGCATTTTTCTTCTTGCCACTCTCTTTATTGAGTGGACAACCCATGCTATTATGCTTAGTTTTATGACAAAGCCCACACCTCATAACTGTGCCAACTCTTGACATTTTAGTTGCTTTAGGTTTCTCACCAGGCTCCCGCTTCCTAGCTTTTCCTTTTGGCCTGCCAGGCATCTTGACATAACCAGGTTGTGAAGGCTTGGGGTGATCTGATGTAGGCCACTTCTCTCCTTCCACAGGCTCCATGCAATGATCATATGTTGTACTCTTCAATTGAATAGCATTGAGCAATAAAACCATCTATGGCTTGTCCTGACTTATAAATAGCACTTAAGGCATGTCATATTTTGCAAGTTTACTGTGTACCTCCTCCTTAGGTGGGCAAGTGTGTTCATCACAGAGAGTACCAACTTGAAACCAATCACATTTGCTTCTCTTTGAACCATAAATCAGCCAAGGACATCTAGGAGCCCTGATCTTGTCCCTCTCATCCTTGATAAACACGATATGTCGTTTGGTCACTATTCCGTACTTAAGTAAAGCTTTCTTCATTTCCTCTTTCCCTCTAAATGTCATGCCAACCGAAAAATGGGGAATAGCAGAATTAGAGTCATACCTTGTCCACCTACTCTTTCTCCTCACTGTATGGTCGTTGTGTTCACCACTATCATCGTCATAAGAATAACCTTCACTAGAATCATATGTAGGTTCATCAATTATCTCATTCAAGCTATCATCTCCATGACCTATTAACTCAATGGGCACACTGTTTGCATCAGGATCTTGTAGAATTAGCCTCATTGCTTTTAACTTTTTGTTATACATCTCAGCAAACTTTCGTAGGTTTACTACCTCCTCATCATCTGGTGAGCTATTTCCACTTTCTGGTTGATAGTCACTATCAATAGTGTCACTATCTTCTCCCACACTTCCTTCTTTGTTTGCATCATATTGTGTCCCTTCCACGTTTTCCATCTCATCAGATTTCACACTGTCAGTTTCCCAATCACTTTCTTTAGAATTATAATCTGACATTGTTTCCTCCACAAAAATTTCAGCCACTCCACCTTCAGCAATGCAACTTGACATATCAAAGCATGCCTTGTCATCTGTCAGTAAACGTAATCATGTGCTTAATTCTTTTCCAGGAAACAACCAGTGAAGCTGCATGGCATCCTTGACCTCGACATGGTCTGCAAGGTGTCCTCTAATTTCAGGCATAGAAATCTTATCATTTTCTATATATAACATCCCTTCATCTCCACCAACGTATTGCACAATCCTTCTAGAATTGGCGAACTCCCCATTATAATGGAATCTGACAGGAAGTATCTCCAAATTATTCATTCTTGCTAGCTTGTGCTACTCCAAGATGTACTCCGCGATCACCTTAATCTTCCCGTCAGTGCGTGATCAGGCAGCCATGGTCGTCATAGACGCAACACTCGAGAGAAGAAACCTAGGAGATGGGATGAGGGAGTACGATGAGGCAAGAATGATATATGGAGCGATGTGCGTTCCCTCCCTCATTTTATTTCGCGATCACTTCACCTTTCCCTCCTGTACTTTGCAATTGCCTGGTCAGCATGACGACGTGGCAAATACGGTCCAGTCAGCCCACCACATGTGCAAAACCGCCTTGTGAAACAGCTTAGGGGGTTAAATGGACTGGATTATAAGGTTTGGGGGCTAAATACCCGGTTTTATAGTTTGGGACGCTAGATGGACTCTTGGGCATAGTCTAGGGGGGATTTGGACTTTTTCCTATATATATTACCATATTGCGTGTGCATTGCAATGGGATTTCAAAAATATCATTAATCTGCATTATCATCATTTCCTATGTATATCATCTTTTAATTATTGTATGTATTTCTATTACTGGCATGTGGACCCTTTAGCCCTATATAATCACTTTAATTAAAAAAAATAGAGAGTTGGTAAAAAAAAAGTGGTTGACATGTGTAGCCTCTAACCCCACCTGTCTTTTTCATTCAAAAGAAATAGAGTGTGCGGATAGTATTAGAAGGGAAAAGCGCGGTGCTACTACCGCACACAGCTGCGCAAGCAAAAGTCTCATGAAATGCCAATTAGTTATTATTGATTGAATGTTTCCCCTTCATTTCAATTAACCTAAAAAAGGTAATCTTAAAACATAGTACATACATAGTCAGAAATTTGTATTCAGTGACGCCAAATGTCAAATGAACAAACTTCATGTAAAAATTTGCTCGTGCAAATACTCCCCGTGCATATTAATTAAAAGTACAACCACACAGGTTAATGTCATGATCATAACAATATAAAAACAATTGGAAGCTTTGTTAACATAGGTGCTCTTTAATTAAATTGACCAAACTTCAAACCATAATATGACCATATTAGTGAATAACCAAAATATCACTCTTGCAACTATGCTTGCAGCTGTTCATTGCATTGTACAAAAATAGGGATGACTTAATTGTGAAAGACAGTGCAGGGATGGGGAAATTGGCATGACAGAATCGAAAGGAACCGTTGTTGACTGCAGCTCAAGGCTACATCATCACAGTTAACAAAAGCTGAAGAATGCATCCCAGAATATGAGCGGTCCCTGTACCCAAATATGACACAGTGTGTATTGTTCTGTATTCTCTAACCTAAATAGTGACAATGTATATAAACATTGTCCATGAAATCCCATCCAAAGCCATCTGATAAATATTAGTTTGAATGTACATATAATTTAACCACACCTCCACTTTGTTGAAGACCCTTTCTGATTGACCAGTCATCCATTGTACTCTCCATCATCTTGCGCAGAAACGCATGAGGGGACTTCAATGCAGCAGATAATTTATCAGACTTAACCACTGACTTTATTTCAGTATATCTTGCAAAAGTTCAATTCCTTTTTTTTCACCAACTTGTCCAACTGCATCATGTATCTTCTCTTCCTCCAGGAGAAGGATGGATTCACTGAAAGTGGAGCTGACTCCTGATAAATTTCCATCCTGCAACTCAGCCTATGCCATCTTTACTTGGAAGGCCTATTAAGCAAGAAGCCATTACATGAAACAGGGTTGGGCTAAGTGGTGTGAAAATCTTCTTGTGCCCCCCATGTTCCTTCCTAGTTGGATTGGAGTATATTATTCCTACACTTTTAGAACAATTTCCCCAACTCGCGCACCACAATCCATTTCTCCTGCTCTTTCCTGGTCCTGGAGGTCTTTGTTGCGGAGCTCGGTGGGGATGGGCTTGCCCTCCATGAGCACCTCACGGCTGACGGAGGCGGCA

Coding Potentia
Explanation CPC Score
noncoding -1.23406
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
Osa03LNT0237300.2 osa-miR5525 Cleavage 5.0 12.109 1 22
Osa03LNT0237300.2 osa-miR812q Cleavage 4.5 13.552 1 24
Osa03LNT0237300.2 osa-miR5816 Cleavage 4.5 11.822 1 24
Osa03LNT0237300.2 osa-miR5824 Cleavage 5.0 11.569 1 24
Osa03LNT0237300.2 osa-miR5830 Cleavage 4.0 8.899 1 24
Osa03LNT0237300.2 osa-miR167a-5p Translation 4.5 14.053 1 21
Osa03LNT0237300.2 osa-miR167b Translation 4.5 14.053 1 21
Osa03LNT0237300.2 osa-miR167c-5p Translation 4.5 14.053 1 21
Osa03LNT0237300.2 osa-miR395f Cleavage 4.5 17.85 1 21
Osa03LNT0237300.2 osa-miR167d-5p Translation 4.5 14.053 1 21
Osa03LNT0237300.2 osa-miR167e-5p Translation 4.5 14.053 1 21
Osa03LNT0237300.2 osa-miR167f Translation 4.5 14.053 1 21
Osa03LNT0237300.2 osa-miR167g Translation 4.5 14.053 1 21
Osa03LNT0237300.2 osa-miR167h-5p Translation 4.5 14.053 1 21
Osa03LNT0237300.2 osa-miR167i-5p Translation 4.5 14.053 1 21
Osa03LNT0237300.2 osa-miR167j Translation 4.5 14.053 1 21
Osa03LNT0237300.2 osa-miR818a Cleavage 4.5 17.502 1 22
Osa03LNT0237300.2 osa-miR818b Cleavage 4.5 17.502 1 22
Osa03LNT0237300.2 osa-miR818c Cleavage 4.5 17.502 1 22
Osa03LNT0237300.2 osa-miR818d Cleavage 4.5 17.502 1 22
Osa03LNT0237300.2 osa-miR818e Cleavage 4.5 17.502 1 22
Osa03LNT0237300.2 osa-miR1861n Translation 4.0 16.696 1 22
Osa03LNT0237300.2 osa-miR1865-5p Translation 3.5 12.546 1 24
Osa03LNT0237300.2 osa-miR1865-5p Cleavage 5.0 11.936 1 24
Osa03LNT0237300.2 osa-miR2092-5p Cleavage 4.5 11.062 1 21
Osa03LNT0237300.2 osa-miR2096-5p Cleavage 4.5 18.98 1 21
Osa03LNT0237300.2 osa-miR2905 Cleavage 4.5 12.323 1 21
Osa03LNT0237300.2 osa-miR2879 Cleavage 4.0 9.391 1 24
Osa03LNT0237300.2 osa-miR1862f Translation 4.0 15.637 1 20
Osa03LNT0237300.2 osa-miR1862g Translation 4.0 15.637 1 20
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa03LNT0237300.2 3 be1 Others Others nan nan
Osa03LNT0237300.2 3 nan Physiological trait Flowering R2404 R2856
Osa03LNT0237300.2 3 nan Resistance or Tolerance Drought tolerance R1618 G164
Osa03LNT0237300.2 3 qSBR-3 Resistance or Tolerance Sheath blight resistance G249 G164
Osa03LNT0237300.2 3 nan Morphological trait Panicle/flower G249 RG418
Osa03LNT0237300.2 3 qPES-3 Morphological trait Panicle/flower G249 G164
Osa03LNT0237300.2 3 QFll3 Morphological trait Culm/leaf G249 RG418
Osa03LNT0237300.2 3 QSn3 Morphological trait Culm/leaf G249 RG418
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