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

>Osa05LNT0313000.1

AAACAAAGGGCTACCTGTTGCTGCCCTACCATTTCATTATACTTCATCAGGTAAAAACAGCAAAACAAAGGGCAAGAGGAAAAAAAAAGGAAAACAACACACACATGCACAGTAACACACACAACCACATCTGCTCAGGTGAAATGACGCATCCAAATACTGCCTCCACCGGTAGAACAGATGTATAGTTCCACTATGACTTGCAAACCGGCTTGGACCACTCCTTTTATTTCTGGTACAAAACAATCGAATAAGATGCACAGAAATTGCTATCGCAATGATGAAAGCATTGTATGGATTTTTATATAGAACAGTCTGATTACAAAACCTTAAAAACTTAATAGGATAATCTGAAAAGCTTAAGTTCCTACTGCAAGTCACTGGGAATTGGCTGCATACATCCTCATCCTGTTTGGATGTAGAGGCTCTGTTTTAATCCATTTTCTAAAAGAAAAAGTCACTAAGCTCCTATCAAATGTTTTCGTCATATGCCAACAAAAGGAGAAATGACACCAAATATGCATGGATTGCTTAACAATAATAAGTTTATAAGGGAAAACCTGACAAACTATGGTTGTGAGTCATTGTGGCCTACAAATTAAAATGCCTTGGGGAGTAACTAAACTGTAAAATGTTAAACAGGTTTCTTGGGTTAAGAAACGCGTAAAATGAACATCTTCATCAGATGTTCATATCATTCTAAACATGAGGCGAAATTGCTCTAAGCATCACCCATGTCAGATGTATGTACTTTTTAGAAACTACTAACAAGATAAACTTTTACTTCAAGACATTTGACCAATTTTGCAGTAGAGCCATCATTGTCAACCTCCACTACTATCCAATGATTGTGCGCAGATATGACAAGTAAAATTATTGGCACCAGAACTATGAGGACGGCACTAATGTAAACAAGGATATTTTCCTAAGTTCTTAATGTCTGCATTAGGAACGAAAACAGATTATATCATTGAGCCTATGACAAGGCAGTACCACAAAGAGCAAATTAGATTATCCTTAGTTCAGCTGCTTCAGAAGTTCCACATCTCTAATGATAATCCTCTTACACAGCACATAGTTCATGGTCCTTTAATAATAAGACCAAGCAAGCTCTTTATTGTAAATATTCAAAACAAATAAAGAGTATCTACTATTAGTTGACTCTACCAGAGAAATAAATGTCTTAGTTGCGTCTGAGTCTATGACAGATAGGTCATATAACACAAACAATCGAATACTATCTGATGCTGCCGCCAGCCTATCATGCTCAAACTAAAGATAGATAATGCTTACAGAGACTTTTTAAAATAAAGTTGCTGCTATAGTATACCTTGTTTGACAAAAGGAGAGCCCTCTGCAAAGTACTTAGTAATAGAGTGAACCTTGCCACCAATCACCTCTGGTAGCCAGGGAGCCATCTGGATTCTGCTCCTGCTCCTTTTGATTTCCTGGTGATGCATCACCCTGCTTTGGTGGAGTGTTGCCATAAAACTCCCGAGCACCGTAATGCACAGAAGAGCCAAAATATGGCGACTCCGATGACTCGTTTGGATATGATTGTTTACCATCCTTGTATGCACCACGAGCTTTAGTAGGGCTGTGCGATTTGCCATCTGCAAAGCCACCGCCATTCTGCCCTTTGGAGTTCTGCTTGTTCAGCATCGCGTACAGGTCCGCCTGCTTCGCGTCTTTCGTATTTGCCGTGGGCGACGCGGAGAAGACGGTGCTGAAGTACCCGTTCGCCGCCGCCGGCGCGGCCCCGGCGGCGGTGGAGGGCGGCGATTTCTTCCTGGAGTCCATACACGTCGGTGGTTTGGGTTTCTTGGCGCTCGAGGAGAGGAGAGGAGAGGAGAGATGAACCTAGACTTCCGTGGAAGGAGAAGAAGAAGAGGAGGACGAGCTCGTGAGCGAGGAGGCGGAGAAAGATAGGGCACGTGAAGTGGTCGTTATAGGCGGCGGCGCGGCTCGGGGTCGGAGGTGGGAAGCGACACTTCTCTGCTCGCCTCGTGGCGCCCTGCTC

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.72075
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa05LNT0313000.1 5 22304002 G T
Osa05LNT0313000.1 5 22305864 T C
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa05LNT0313000.1 osa-miR6254 Translation 4.5 18.522 1 21
Osa05LNT0313000.1 osa-miR6256 Cleavage 4.5 15.437 1 22
Osa05LNT0313000.1 osa-miR1432-3p Translation 5.0 15.351 1 21
Osa05LNT0313000.1 osa-miR1428e-5p Translation 3.5 20.97 1 22
Osa05LNT0313000.1 osa-miR1428f-5p Translation 3.5 20.97 1 22
Osa05LNT0313000.1 osa-miR1428g-5p Translation 3.5 20.97 1 22
Osa05LNT0313000.1 osa-miR2871a-3p Cleavage 4.5 16.04 1 21
Osa05LNT0313000.1 osa-miR2871b Cleavage 4.5 16.04 1 21
Osa05LNT0313000.1 osa-miR395x Cleavage 5.0 12.077 1 21
Osa05LNT0313000.1 osa-miR5815 Cleavage 4.5 19.39 1 24
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa05LNT0313000.1 5 qNBL-5 Resistance or Tolerance Blast resistance RZ649 RZ225
Osa05LNT0313000.1 5 QPl5 Morphological trait Panicle/flower RG13 RG346
Osa05LNT0313000.1 5 nan Morphological trait Seed RM163 RM31
Osa05LNT0313000.1 5 nan Morphological trait Seed RM163 RM31
Osa05LNT0313000.1 5 nan Physiological trait Eating quality RM163 RM31
Osa05LNT0313000.1 5 nan Physiological trait Eating quality RM305 RM178
Osa05LNT0313000.1 5 nan Physiological trait Eating quality RM305 RM178
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