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

>Osa12LNT0133500.2

TGGAAGAATAATCATTTCGGCAATATGAAAGAATAATCATTTCAGTAATATGGTAAAAAACAAGATGCTAGAGAGATCACATAACCCAGACATGATTACAGGACTAATCAATATAGCAGTAGAAAAGGAAAAGCTCACACGAACAAATTTAAAATAATCTATACATATAGACTACATTGGGAATTATTATTGACTACTGAAGACTGGCCTAAACTCATGTTTGCTTGGACTAGAACTGCCATATGTTGGTTAGTGACAGCTGCTTGTTCACTTTCGCTTGCCGAAAGAAACAGTAACACCCTGATGCCACCTTGCCAATGTAACTGCGTCTGCATCAAAATAATGGACCTGAAACTTGAAGTAATGAAATAAATCATGAAAGAGTAACTATTTTCCTCTGTTATCCTTCATTATTCAAAGCATTATTATCAACATCTACTGTTGTTCCTTCAACATCTGTTCTAACCCATTGCTTGTAATTGTTTGCATTACTGGACATTCCACCAAGGTGTGAAACATGGAATGGCTCAATTTCTATGTCACCTGCCCATTCATCCTCACCAATGTCATATATATCTCTAGGTTTGTTCTTCCTTACCACAGACCACCCAGGATTCATTGGATCATCGACATAATAAACTTGATCTGCTTGATTGGGGAAAATAAAAGGCTCATGCTCAACTTTTTCTCCAGTATGTATGAGATGTGAGAAGTTAACTAGTGTGTAACCATACTTATCTTTTTTAACTCCTTTTCCAGAAACAACATCAACCCATTCACATTTAAACAGTACTACTGAAAATTGTCCAGAGTAATTTAGCTCAATAATATCGATGACTCTACCATAGTATGTTAGATCACCCAATATTGGATTTGTGTCACTTGATTTAGTATAACTGGATGTTTTTGCACTTAGGACAACTCCGCTATTCTGTGTCACTCCATCCAAATGTTTAGGCCTAAACCGGAAGCCACGGGTATTGAAAGCACGATATCTTTTTGCTGGACCAATCGGACCACGAGCCAGCCATCTATGATCATTCTTGACACTGCATATGCCATTTTTCCTCTCTAGATCCATTATATGAGCTCTGAACCATTCATGGAATTTTTCATTTTGGATACGCTCGATAATCTTTGGGGTGATGCGGCCTTGCCGATATGTTCTTCTAATCTCATCAACATGAGTTCGAAGGTATGGGTTGACATCTGGACAGTTGAAGAGCACATATCTATGTGCTTGCATTTTAGTCAAGCCCCTAATAACATAACTTCTCGGCTTGCCAAGTGGTTTTCCAACATGAGGAAAAAGATATGGTGTGCATTCATCATCTGAACATGCAACTGACTCATCATTATCATCATTTCGTGTAGGCTGGTTATGCTTTGTCTCAAAACCTTCAAGATATCTTGAACAAAATGTCATACACTCATCTGCCAAATATGCTTCTGCAATACATCCTTCAGGATGTGCCTTATTACGCACATATGACTTTAATACACTCAAATACCTTTCCACAAAATACATACATCGGTAACACACAGGACCTCCTAATTTTGCTTCAGTGGCTAAATGAACAACCAAGTGCACCATAATGGTAAAAAAAACTGGTGGAAATATCATCTCCAAACGACATAATGTCATTTTAATTTGTTCCTCTAACTTGTCAAGCACATCAATGTACAGGACTTTTGAACTCAGTTCTCTAAAATATCCACATAGATCAAATAAGACAGAAGTGACATTGTAAGGAAGCACACCCCGCAAAGCAACTGGGAGAAGTTCTTGCATTAGAATATGACAGTCATGACTTTTAAGACCTGAAATTTTCCCTTGACTAACATTTATACATTTTGAGATGTTTCCTGCATAGCCATCTGGAACCTTAATATCATGGAGAACTTTGCAAAATTGATGTTTCTCCCGTTTAGACATTGTATAGAAAGCAGGAGGCAAATAATACTTATTATTAGCTTTTCTTATGGGATGCAAATCTGGCCTTATATTCATTTCTTGTAGGTCCAAGCGTGCTTGTAAATTATCCTTTGATTTGCCTTCCAGTCCTAACAATGTCCCATATATGTTATCACAAACATTCTTCTCAATATGCATTACATCAAGATTATGATGGAGTACATTCAAGTCCCAGTAAGGCAACGAAAATAAGCCACTACGGCATTTCCATGTTTTTGACTTCTCAAAATCATTAATTTTCTCTATCTTTTGTAAAACTGATGTTTCAGAATAAGCAAGAGGTTCTACTCTATGTTCTTCAGTTCCATCAAAAGAATTTTCATTATATCGTAATTCATGGTCCAGAGGAAGAAATCGACGATGTCCCATGAAACAATACTTGTGTCCATGTTTCAAACGTTTAGAGCACGTTTCTTCATGACACATAATACAAGCAAATTCACCATTGACACTATATCCCGCAAAGATCCCAATCCCAGGATAGTCACTAATAGTGAACAGTACTGTAGCACGAAGCTGAAACATCTCGTTTTGAGATGCATCATATGTAGGAGTTCCAACCTCAAATAAATCAAATAACTCTTCATAAACTGGTTCCATAAATAAATGAAAATCCTTTCCAGGGTAAGATGGACCAGGAATTATTAGTGCAAGCATAATAGAAGATGCTTTCATGCATAACCATGGAGGAAGGTTATATGGAATCAAGACAACTGGCCAACAACTATAAGTTGAACTCAATGTCCCAAAAGGATTAAATCCATCACTAGCCATTGCAAACCTAATGTTTCGAGAATCCGATGCAAACTGGGGATTCCTAGAGTCAATGGACTTCCAAGCCTCTGAGTCAGCTGGATGACGCAACACACCATCCTTTGTACGACCCTCATCATGCCATCTTAATGCTATAGCTGTTTCCTTGTGCATAAATAACCTCTTAAGCCTTGGCTTAATTGGGAAGTACCTTAACACTTTCCTTGGGGTTGCCCTTCTCCTTTCCTTCTTTGTTAAAGTAGTTTTATCTTCTTTGTTTTTCCACCTTGAAGTACCACATTTTGAACAAAAGTCATCGTTTGCCTTAGCTTTCCTATAAAGCTGGCAGTTATTTGGACAAACATGAATTTTGACATAATTAAGTCCAAGCTTTCCTATTATCTTCTTAGCTTCAGCAAATGTTCCAGGTAAATTCTTACCATTTGGAATTGCTTGTTGCAAGATTGCTAGCAAATCATTTAATGATTTATTACTCCACTTGTTAACTGATTTTATGTGAAACAAGAGAACTAGAAATGACAGCCTTGTAAGTTCACACCCTTCCCACAAAGGGTCATGAGCATCTCGGAGCAAGTCATAGAATGCTTTTGTTTCATGGTCTGGCCCACTGTTTAAAAAATTTTGTACATCATATTCATTCACTGGAGGGTCATTGTTTGTGTTCCCAAAAGCATCTTGCACTAGTTGGCGCATGTTACCATCCATTCCTCTACTTTGTGACTCTGTTCCCCTACTGTTGGCAGAGATGAATGATGTGGTTTCACCATGACAACCCCATGGACTATACCCAAGTAACATTCCATGACATACTAAATGATCATACACTTCATCCCGCGTTAATAACCACTTGTTGACACACTCCTTACATGGACATCGGATCTTATCTTCAAGACTCTTTTCCCTATATGCAAACAGAAGAAAACCATCTATTCCAGCAAGGTACTCATCACTTGGTCTAGGGAAAAGCAATAACTTCTTAATATTATTCAAATCCATCAATTTTCTGTGTTAAAATAAGAAATATAGTTAATACATGAGTGTTCCTAATTTGACAACAACCACTAAATATTTTTGATTCTATAATTATGCCTTCAAGCCAAAAGAAATTTGTCTACCGAACATGTGTAGGTGAGGTTAACTGTACCTGGAAGCTTAGGATTAGGATCCAGTAGATACAGCGTCGATGCAGCCCTGATGCTTGTTTAATTGAACCAAACGAAAACGACCATCTTATCTACTGCCGTCATATGCACTTGACTGCCTTAGGGTCTTGACCGTCTTGATCACCAAGCACAGATCCACCAACACCAAGTGAAAATGTGATGGTGAGGTCGCTGTTGCTGATGTGTGGCACGCACAAGGGACATGTAACGGGGACGCACGGAGGATGCTAGCCACACCGCGCGAGTCGGAACTGGACCTGGATTCCTAGGGATAGGCCACCGGGGCGGCTAGGGCACGTCTGCACCGGCGTGGAGGCGACCGGTGGCCAGCGCTGCAGGGGCTCGGGCCTGTTTTGGTGGCTCTCGTCAACGACGGAGTGCTGGGGAACGAGACTAGATTGGATGAAGATTGGAAGGGAGCGCACAGGCCTACACGTAGGAGATGAGCGTGTTTCTCAATCGGTATCACAACTGCTTCTGGATAAGGAGAAG

Coding Potentia
Explanation CPC Score
noncoding -1.20243
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa12LNT0133500.2 12 21966137 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
Osa12LNT0133500.2 osa-miR5542 Cleavage 4.0 11.076 1 21
Osa12LNT0133500.2 osa-miR5544 Cleavage 3.5 18.174 1 22
Osa12LNT0133500.2 osa-miR5790 Translation 5.0 11.31 1 24
Osa12LNT0133500.2 osa-miR5079b Cleavage 4.0 14.372 1 22
Osa12LNT0133500.2 osa-miR171c-5p Cleavage 4.5 12.398 1 21
Osa12LNT0133500.2 osa-miR419 Translation 3.5 18.884 1 21
Osa12LNT0133500.2 osa-miR437 Cleavage 4.5 14.307 1 21
Osa12LNT0133500.2 osa-miR535-3p Translation 4.0 10.851 1 21
Osa12LNT0133500.2 osa-miR1861c Cleavage 3.5 21.265 1 22
Osa12LNT0133500.2 osa-miR1861g Cleavage 4.0 21.265 1 22
Osa12LNT0133500.2 osa-miR1862e Translation 5.0 11.432 1 24
Osa12LNT0133500.2 osa-miR1320-5p Cleavage 3.5 22.089 1 21
Osa12LNT0133500.2 osa-miR2093-3p Cleavage 5.0 14.373 1 20
Osa12LNT0133500.2 osa-miR2099-5p Translation 4.5 14.881 1 22
Osa12LNT0133500.2 osa-miR2870 Cleavage 5.0 15.795 1 21
Osa12LNT0133500.2 osa-miR2873a Cleavage 2.5 9.539 1 24
Osa12LNT0133500.2 osa-miR2874 Cleavage 4.5 11.054 1 24
Osa12LNT0133500.2 osa-miR3981-3p Translation 4.5 22.792 1 21
Osa12LNT0133500.2 osa-miR5077 Cleavage 4.5 18.506 1 19
Osa12LNT0133500.2 osa-miR5079a Cleavage 4.0 14.372 1 22
Osa12LNT0133500.2 osa-miR5488 Translation 5.0 15.858 1 21
Osa12LNT0133500.2 osa-miR5494 Cleavage 5.0 12.589 1 21
Osa12LNT0133500.2 osa-miR5494 Translation 5.0 17.267 1 21
Osa12LNT0133500.2 osa-miR5507 Cleavage 5.0 11.589 1 21
Osa12LNT0133500.2 osa-miR5523 Cleavage 4.0 11.906 1 22
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa12LNT0133500.2 12 qDLA-12-3 Resistance or Tolerance Blast resistance RG463 RZ816
Osa12LNT0133500.2 12 nan Morphological trait Seed RG543 RG81
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