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

>Osa09LNT0443400.2

CATTTGTTCACGGGTCGCCAAATTCCTTAGGAGATTAGGATTTATGTTTTTTCCCCCTTCTGTACCCTGTACCCTGTCCCCTTCTCTTTTAAATTGTTTGGCCCTCCTGTAATTACATTTACTCCTCCTTAATACAAAAATGGGCGTCTTGCGTATTCCCGAAAAAATCAAGTGTGCCAATCATGGCTATTGGATACATGCAAGACAAATCATGAAATCGAAAACCAAAGTGAAACACGGAGTAGATCAGCACTAGAAAAAAAAATGGAAGCAATCAGAGGCCATTCATCGCATTTTCCAACAAGGCCATGATGGCGCAAGCGTGGAGGTGTGGAACCCATGGAGAAACACGCCTGGTCGAGTACTGCATGAGAAATTTTGCAGATAGAAAAGAGTGATCTCATGTCGAAATTGGCTTGCTTCTCGAAATACTTCGATTTAGATTTGGAGTAGTTGCCTTAAGAGGCTAAAGCACCTGCACCTTTGATAGCGGAGCAGTTGATCTCCTGTCTTAAGAAAAACACGTGCTACCCTGAGAGCACAAGATAACAATCTGCTCATCTCACCTAACAGTCACAATGTAATCAGTTTCTGCAGTCATATGTCACACTTGCACAAAACATTGAAGCGTAGAAAGCCCTGAAAACTATCACACTATTTTGCAGCTGTCATTGTCATCCAACCCCAAGGCTTTCATGAGAAATGCATACTCAAAAGCTGTCTCATCGCAATGCATGAAGCGTCCACCCTCACCAAAATGACCACTTTGCATATTAGTTTTGAGAATGACAGACCAGGAACAGGATTGGCATGTAATATCTCTCACTTTTGAAACCCATTTAGCAGCTTCCCAGACTCCTACCCTTGTATCATTAAATGAGGCAGTTACCAGAACCGGTGGGTAGCATATGTCAGGAGATAAATTGTCATAAGGAGAATAACTACGAATAGTATCAAATTCAGTGGAGATATTAGGGTCACCAAATTCTTCATAATCCAAGATGGTTAGAGGCAAAGTAGAATCCATCATTGTATTGCAGATATCAAGAAAAGGGACCTTTAGAACTGCAGCAGAAAATAAATCCGGCAGCATATTGATGACTGCACCAACCAACAGGCCACCAGCACTGCAACCTATAGCACAAAGTCTATTTTTGTGAACAAATCCTTCCTTGATGAGATGTGTACCACATGCAGCAAAATCTTTGATAGAATTTATCTTGTTAGCTTTGGTGCCTGCAAGATGCCATGATGAATCCCCACCACCCCTAACGTCTGCAAATGCGACAACCCAACCTCGAGCAAGCAGACTTAACCTATCAGAACACCAGCTCTTGTCCAGATCTTCTCCATAAGCTCCATATCCATACAAGACGCCAGGTGATTCTCCACGACGATGTGCTTCCCGTGAATACAGGATCACTAAAGGTACTGAGACACCATCGTGTGAAATAACTTGGACCCTTTCACAAGAAAATAGCTTGGATAGATCACTCCAACTCTGTGAGTCTTCAATAAGCTGAAGGTTTTGTTGGATGCCTGTAATATTGGATTGCAGCCCAACTGTGCATAGATTTGAGGAAAGGCCAGTTACTTCCTCTTGGTGAAGGATTGCAAATGTCCTCATTCTCATGTTATAGTCCACTGTTAAGTCTGGAAGCACTGGTGATGACAAAACCAGACGATAAGTAGATGACATGAAGTCATTGTTGGATCCAGGAACAATGCTGCATAAGTCTGACGGTACAGGGAAAAACCATGGATCAAGATCATCAAGTTCCTTTTGCTCCTGAAAGTCAACATCAATTGGCAAATTGATGGAGCAAATAAGAGGAAGACCGCTTTTTCGAATAAATAGAACTAATTGTTCATGAAAAATGTCCATATCCTGAAAGGTATAATATGATCCAGGGAGTGCAACAACCTGCCATTTATCCATTTCTGACTTTTCAGCTCTGCACCTGGCCAGGTAGTAACCACCATTTGCTGTTTCAGTACCTTCTAAGGGTGCATTAGTAAGGATGTAGAAAAACCCATTATGATGCTCCAGAAAGTACTGCACTTTGTCAGAACGTTTCTGTACGGGCCATAAGCCACCTCTTACATGACCAGACTCCATCACGTACACCTTCCTCGGATGATGTCCTAGTGTTTGAATTGATAGTGACATACTTGAAATCTTTTGTGCTTGTGATATCCACACAACAGTTTATATCTTTCTCCATGAAAACCAAAAAACCTGCCTGATCTGATTGCAGATCTTTACAGAGAACCTGATTAGGTCGTAGAGTCTCATCACAGACTGTGTAAAATAAGTTGTCGCTGTTGCGAGACCATGCTAAGCTAACTATTCCCTTGTGGGGTGAACAAAAAATGGTGTTTGTCGACTGAATATCTTTCACTTCTAAGGAAAAGAACTCATCCCCAGATATATCAAGAGTATATGCGAGAAACCTATGATCAGGAGAGATTCGACAACTCCCGATGTGCACATAACCAAATTTTTCTGCAATCTCATTCCAGTCAAGCAACACCTGCTCCTTTTTTGAACCAGAAATGAAATCAAGGGCAGCTCTTGCTAGACCACCAGAAGACCTCAATCTTCTGGATAAAACTGGGTATTCCTTACCCTCTGGAACATACTGGTAATATAACCAGGGGCCCCAGGGCTGAGGCGGGGAGGCGGCGGAAGGGGGCAGCCGCGCGCGCATCTCGGCCGCGAGGCGCGCGCGGAGGCCGCCGCCGCCCTCGCCGGCGGAGTCGACGAAGGCGTCCGCGTAGGCGTTCTCGGCCTCGAGGAGCGCCGCGAGGTCGGGGTCGGAGGTGTCGCGCATCCAGTGGTAGGGGTCGCTCCACGACCTCCCGTGCGCCGACGCCGTGAAGGGGACCTTCTTCGCCACCGGCGGCGGGAGCGGGAGCGGGGCGGGGCTCGGATGCTGCGGCGGCTGCGTGGGGTGGCCGCGGCGGCAGGAAGTGGAGAAGAGGCGGAGGACGGCGGGGAGGTGGTGGCGCCGGCGGAGCATCGCGCCGGCGCGGCCGCGGGTCGACGGTTTTTCGGTTTTGCGCTGTTTGCTCGTTGTGAG

Coding Potentia
Explanation CPC Score
noncoding -1.21359
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa09LNT0443400.2 9 18224134 G C
Osa09LNT0443400.2 9 18224481 A T
Osa09LNT0443400.2 9 18225330 T C
Osa09LNT0443400.2 9 18226571 A G
Osa09LNT0443400.2 9 18227190 C T
Osa09LNT0443400.2 9 18227447 A C
Osa09LNT0443400.2 9 18228218 A G
Osa09LNT0443400.2 9 18228736 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
Osa09LNT0443400.2 osa-miR5797 Cleavage 4.5 17.29 1 21
Osa09LNT0443400.2 osa-miR5822 Cleavage 5.0 16.797 1 21
Osa09LNT0443400.2 osa-miR818f Cleavage 5.0 17.403 1 21
Osa09LNT0443400.2 osa-miR1874-3p Cleavage 5.0 8.289 1 24
Osa09LNT0443400.2 osa-miR2865 Translation 4.5 23.319 1 22
Osa09LNT0443400.2 osa-miR5494 Translation 4.5 12.897 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa09LNT0443400.2 9 qSB-9 Resistance or Tolerance Sheath blight resistance C472 R2638
Osa09LNT0443400.2 9 nan Morphological trait Panicle/flower RM257 RM566
Osa09LNT0443400.2 9 rdw9 Resistance or Tolerance Drought tolerance R79 R2638
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