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

>Osa09LNT0430300.1

AGAGAACTGTTTTTCTGACAGCATTCCATAGGTACCTTACTTACAAAGCAGAAAATATGGAGCATATTGGGATCATTTACTGTAAGATTGCTAACATGGGTATGAATAAACTTCTACAGATTCCAGGTGAACTACTCTAGATTTGCTGAGTTGGGTTACATACGGTTTTGTAACAGGGCAACCAGGATGTTATGCATTACTGCAGATATTCGAAATCTTCAGTTATCCCCACCTCCCTGTACATGTGTTCGAGTTGTTCTTTTGCTTGTGGGAAAGTGGTCGAACACCACTGTTGCAGAGTGAAGATATTGTCTGTCCATCTGTTAGCTGCCGCATGAGCAACCTCAATAGCATCATTCATTGCCTCTAGTGCTGCTGGATCACTATCAGCATAAGCAGCCAGTTCCTCCTTTAACTTCTTGTGGTGTTGCTCTACAGCCTTCAGCTCCTCCAAAGCAGCTTCTCTCTCATCAGAGTCCTCTCTGCCTCTTTTCAAATTCTCTCTCTGCTCAACAAGCTCTATGAAGCGCTTTTTAGAGCTTGAAAGATCAGATTCCAGTTTGCTGTAAGTAGTCCTCAGCTACAAACAGATCCATAGATGGATTAGCTTAAACTATGACAAGTAATGACAAATGAAGGTATTAATGTGCACTAAAAGTTGCAATAAGAAATATATTACTAGTTGCTGCATTTATCCAAGTGATCAACAAAATGACGAAAATCCCTCTTTGCTTGCCTCTATCTTGATGAGTAAACAAAAGCTCTTCTTACCTGTATATTATCCTGATTCTCAAACCACTAGGGTATGCTGCACTAATAGGAATGATTCATGGCAGTTAATACTCTCTTCTGCAAAGCTTCAAAAGCTAGTTGTGATACTAATACATGGAGCCAGCACCACACTATATACTCAGAAAATTAACATAAAAAGTATTTTGTTCTTCGCAAACCTGTAAGAAGAATTTAAAGGACAGAGTGTGCCGTCTAGCTTGCTTACTTTTACTCGTGTTACCAATTGTCATTAGGAAAAAAAAAATATGGTCAGGGGATCTAACTCTTGGTACCGAATTTGTGCCATGTTATCACCGAATAAATAAAATCAGACATGAGAATTGACACATGCAAGGTTAAAGGGGGTAGTAATGGTATAAAAAAATACCTGATTTCCAGCACAGCTGGGAAGACTCCAAAAGTACACTGAAGTCCCTATTTTATCTTTCAAGACAAGATCATCATCCACCAGGCTTTGCACAACATCCTTCACTGACTGACTGATGACACCCTTTTTGGGACCCAACTTCTCAAGCTCTTTAAGCAGATAGAAGTCTTGACTGTCATAAAATATTTGTAGCATCTGCTCCCTCTTCTCCTCCAAAGAAAGACCCCTCTTCTTCGACATGATCCTCTCCCCTGCTCTGCTCGCCAGATAGAGATCGCCGCCCCTCCCCTGTTCAGCCGCCACTCGTCTTGGCGTTGGCGGCGCAAGGAGC

Coding Potentia
Explanation CPC Score
noncoding -1.09805
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa09LNT0430300.1 9 5935137 G A
Osa09LNT0430300.1 9 5935611 G A
Osa09LNT0430300.1 9 5935702 A G
Osa09LNT0430300.1 9 5935835 A G
Osa09LNT0430300.1 9 5936169 C T
Osa09LNT0430300.1 9 5937365 A G
Osa09LNT0430300.1 9 5937560 T C
Osa09LNT0430300.1 9 5937624 A G
Osa09LNT0430300.1 9 5938274 C T
Osa09LNT0430300.1 9 5938406 T C
Osa09LNT0430300.1 9 5938423 G A
Osa09LNT0430300.1 9 5938595 G A
Osa09LNT0430300.1 9 5939068 C T
Osa09LNT0430300.1 9 5940481 T C
Osa09LNT0430300.1 9 5938427 G A
Osa09LNT0430300.1 9 5936206 T G
Osa09LNT0430300.1 9 5937133 A T
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa09LNT0430300.1 osa-miR6251 Translation 5.0 11.001 1 21
Osa09LNT0430300.1 osa-miR2878-3p Cleavage 3.5 9.266 1 24
Osa09LNT0430300.1 osa-miR5485 Cleavage 5.0 8.963 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa09LNT0430300.1 9 nan Morphological trait Root C711 G103
Osa09LNT0430300.1 9 clr9 Resistance or Tolerance Cold tolerance RM285 RM434
Osa09LNT0430300.1 9 qPC9 Physiological trait Eating quality RM4413 RM1896
Osa09LNT0430300.1 9 qAC9 Physiological trait Eating quality RM4413 RM5122
Osa09LNT0430300.1 9 Sub-1(t) Resistance or Tolerance Submergency tolerance C1232 RZ698
Osa09LNT0430300.1 9 apd9 Others Others CDO590 G103
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