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

>Osa11LNT0102900.1

CATTGAAAAATAGACCCCAAATTGCAGGGTTTAGTTCGATTGTCCACTCGTGGACTACAACATGAGTCTCCGTTTGTCGACAAACCCCCTCAACTATTGGCCTTCAATTTCTCCCCGAGGATTTTGTTCAACAAAACAGGATTAGCTTTACCCTTTGATGCTTTCATCACCTGGCCAGCAAAAAATCCTTGCAATTTAGTTTTCCCGGACCGATACTGCTCAAGTTGCTTTGGATTATCAGCTAATACTTGATCTACCATTGCCTCAATTGCTGCAGGATCTGCTATCTGAACCAAATCTTTCTCCTCTATCACAGACTTGACAGTTCCACCTTTCGCAATGAGTTCAATCAGAATCTCCTTTCCAATCTTCCCACTGATAGTTCCATTCCTTATAGATGCAATCAATTCAGAAAGCTCCAGAGGTGTTAATTTAATTTCATCAATGGAAAGTTTTTCATTTTTCAAATAAGCAGCAATGTCACCCATGATCCAGTTGGCAGCCAGCTTTGCATCCGCGCCGTGCTCAAGGGTAGAATCGAAGAACCGAGCAACATTATCGTCATTAGCAAGGAAAAGAACATCTTGCATGCTGAGTCCCATATTCTCGAAGCGCCTACGCTTTGCTTCAGGAAGCTCTGGCATTGAGTTTTGAATTTCATCAATGTACTCACTAGTAAGAACAACTTCAGGAAGATCAGGCTCAGGAAAATATCTATAATCAGCAAGTCCCTCCTTTTTTCGCATTGTAAAAGTTTTCTGAGAAGATTCATCCCACAGCCGGGTTTCTTGTACAATTTGATCAGCCTGACCTTCTTTATGAAGAAGAATCTGCCGGGAGATCTCATAATCTATTGCCCTACTTATTGCAGAAAATGAATTCATATTCTTTATTTCAACCTTTGTACCAAAATTTGATTGTCCAATTGGCCGAACAGAAACATTCACATCACAGCGAAGGGAACCTTCCTGCATGTTACCATTACTCACGCCCAGGTACCTAACAAGCCTCTGTAGCTCAGCACCATACTCGGCAGCCTCTATCCCTGTTCTCATATCTGGCTCTGAGACAATTTCAAGTAAAGGAACGCCAGCCCTATTTAAGTCAACCTGAGAGTAACTCCCGGATTCAGAGTGAAGCAGCTTGCCAGCATCTTCTTCCATATGCACCCTTGTGACCCCAAATCTCCTATGCCCACCGCCGAACTCCACCGGAAGATCCAAATCAAGGTAACCCTCCTTGGCAATGGGAATGTCAAACTGCGAAATCTGATACCCCTTGGGCAGGTCCGGGTAGAAGTACTGCTTCCGATCAAACTTGGACGTCATCGCGATCTCGCAATTGAGAGCGAGGCCCAACCTCACGGCGCATTCGACAACCTTTGCGTTAAGAACGGGCAGCGTTCCGGGGTGCCCCATGCAGGTGGGGCAGACGGTGCTGTTCGGCTGCGACCCGTAGCTGTACGGGCACGAGCAGAACGCCTTTGTGACCGTCGAGAGCTGGACATGGGTCTCGATCCCGATGACCGCCTCGAAGCCCTGCGCCTTCTGCTCCGCCGCCTCCTTGGTCGCCAGCTGAATCGACTTGGGCGCTGCGGCCCGCGCGCTCTCCGCTCTCATCGTGAAGCGGGACAACAACGGAGACTGCAATGTGGTGAAGAACAAGCCAGCATTCCTTCTAGCTACAACCGGCGTTCGCATCCCTCTGAGAAGGGTCAGTGCCATTGTGCGCCCTAATGCAGGGAGGGACCTGATTTACCAAACTTCAGTGCGGTTCGAACCGAGATGGAGGCCCCGGCCCCGGCCGCCGCGTCGCTCCTGGCTCCAGACCCTGCTCGCCGGCGTGAGAGAGAGCGAGGAGGCTGCGTCTACACTCCACGCCGTGCTTCGTCGGCGGGGGGAGAACGCCGGCGCGGCGGGCGGCGGCGGCGGCGGCGGCGGCGGCGGAAACAGTGGATAGAGGGGAGTGGGAAAAA

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.971636
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa11LNT0102900.1 11 20030070 G C
Osa11LNT0102900.1 11 20030266 C A
Osa11LNT0102900.1 11 20031491 C A
Osa11LNT0102900.1 11 20031738 G A
Osa11LNT0102900.1 11 20032387 A G
Osa11LNT0102900.1 11 20032470 A T
Osa11LNT0102900.1 11 20032949 T A
Osa11LNT0102900.1 11 20033078 C T
Osa11LNT0102900.1 11 20033578 T C
Osa11LNT0102900.1 11 20033854 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
Osa11LNT0102900.1 osa-miR5526 Translation 5.0 14.368 1 21
Osa11LNT0102900.1 osa-miR171c-5p Cleavage 4.5 16.631 1 21
Osa11LNT0102900.1 osa-miR1852 Cleavage 5.0 17.232 1 21
Osa11LNT0102900.1 osa-miR1872 Cleavage 4.5 11.792 1 24
Osa11LNT0102900.1 osa-miR2105 Cleavage 2.5 14.673 1 20
Osa11LNT0102900.1 osa-miR812o-5p Translation 5.0 24.755 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa11LNT0102900.1 11 elr11-1 Physiological trait Eating quality RM1812 RM209
Osa11LNT0102900.1 11 qDLR11 Resistance or Tolerance Other soil stress tolerance RM2596 RM286
Osa11LNT0102900.1 11 gpl11.1 Resistance or Tolerance Drought tolerance RZ537 RZ900
Osa11LNT0102900.1 11 gw11.1 Resistance or Tolerance Drought tolerance RZ537 RZ900
Osa11LNT0102900.1 11 yld11.1 Resistance or Tolerance Drought tolerance RZ537 RZ900
Osa11LNT0102900.1 11 nan Morphological trait Seed RM332 RM229
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