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

>Osa09LNT0433400.1

AGGCCGTCGTGCACAGCCTCTCTCCACCGGCGAGAGGCGGCGGCGGCGGCGGCGGCGTGCACAGCCTCTCCCTCGAGCCGCTCCGGGGCTTCATGGCGCCATGGCCTCCTGCCCACGAGCGTATGGCAAAGGTGAATACATGTGAGCTGCTCGTTCCCTGTAGAACACAGTGCGTTCAACAGACACAACTGGCTGAACGGAAGAAGAATTCTGCACTCCCATAAATAAAACTGACGCATACATGGAGCCCATGGCATTGAACAAGTCCTGTTGATTGCTCCTGCAAGAGTGGAGTATCCTCAGTGAATTGTGACAGATATAATCTCAAGAACATTGTTCCAAACAACAGTGCAATTACAATGGTGTAGAAGTATTTGACAGCAGTATATGGAGGGTTTCTCCAGTAGGACAGACTTTGCTTCCATAGGCAAGCCAAACATTGTGTGATGAAAGTTTGAGAGTATTCTGTTGGAAAGGATAGGTCACTTGAACCATCAGGAGAATCAATTTCCGCAGGCAATCGGAGCCATGCAGAGAATGCAAGAGACTCGTAGACAGTAACATTTGGTGAATGGATGTCATTCTGCTCACAGTATCCTGATACACGAGCAAAAGTTTCTTGCTTCTTTGGATAGCCAGAGATGGTAATGTTACCCTCTATGTATCCACTGGTCTTCCTCCCAGCCAACACATCCATCAATGTTGTTTTTCCAGCACCACTGACACCCATAAGAGCTATTGTGTAGAGGATATTGAATAGCAGGACGTATCCGAGCAATGCACCAACACCAATCCAATACCATTTGGCCTCAGGGAAAACTCCACGGGATTCAAGAACTAGTTTTCCAAGTGGCTCCCTGAAACCAGGGCAGCAGGGTGGCTCCTGCTCTTGTCAAATGGGATTGCCAACTCACTTCTTATTGCCTGACCAACATGGAAAGACTGAAATGCCTCTGCAAACTCCTTAACAGGAACATATCGGTTGTAACAAAGCAATGACTGCTGTTCCACCAACAATGTGGATGGTCTGCCGGATGGAGTCCACAATATTGTATGTTGTGGAGCTGTCAAGTCCAGTTGATATCTCATCCATGAAAAGGGCTCGTCCTGGGGTGACAATCATCTCAGCTGCAACACCAATTTCAGGGTCCGGAGAAATTGACTGTCTCACGAACCGTCAATTCACCCATATGTAGATCATGTTGACTAACATAAGCTGCTGATCTCCGGGGCTCGAATTCATCCATGAGCCCTATGTTTGGAGTACCAATCAGGCAAGTCTGCTGTTTATCAAGATGTCCAAGAGAAGTCGTGTTACCAACTCCAACCAGAGAACCTAATCTCGTTGCTCTTCAGGATCACCGGTTTGACTGTCTTAACAGTGGCCCAGAATTTTGCTGCACTACAGGAAGCTCTCTAGCTAACACGGGCGATTGTCGTAATCAAAATTAATGACAAGCACTGAATTTGTTTTTGCCAACTAAGTTTCACAAAACCACAGATATATTGACTAAATTAACACAAAACTACAGATTGATACATCACTTTAATTCTGTAGTTTTATGATATATCACCTTAAATCTGTAGTTTTGTGATAATTTGAACAAAGTATTTGTAGTTTTGTGAAATTTACTAATTTTCTCCTATCGGTGGATGT

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.281266
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa09LNT0433400.1 9 9975896 T C
Osa09LNT0433400.1 9 9970514 A G
Osa09LNT0433400.1 9 9970575 T C
Osa09LNT0433400.1 9 9970868 A G
Osa09LNT0433400.1 9 9971410 T C
Osa09LNT0433400.1 9 9971424 T C
Osa09LNT0433400.1 9 9971510 C T
Osa09LNT0433400.1 9 9971585 C T
Osa09LNT0433400.1 9 9972311 C A
Osa09LNT0433400.1 9 9973102 C T
Osa09LNT0433400.1 9 9973293 T G
Osa09LNT0433400.1 9 9973328 C T
Osa09LNT0433400.1 9 9973361 C T
Osa09LNT0433400.1 9 9973445 A G
Osa09LNT0433400.1 9 9973483 A G
Osa09LNT0433400.1 9 9973833 C T
Osa09LNT0433400.1 9 9975084 C G
Osa09LNT0433400.1 9 9975236 A G
Osa09LNT0433400.1 9 9975302 T C
Osa09LNT0433400.1 9 9975503 C T
Osa09LNT0433400.1 9 9976104 C A
Osa09LNT0433400.1 9 9976161 A G
Osa09LNT0433400.1 9 9976188 T C
Osa09LNT0433400.1 9 9976437 C T
Osa09LNT0433400.1 9 9976797 A G
Osa09LNT0433400.1 9 9977672 G A
Osa09LNT0433400.1 9 9977798 T C
Osa09LNT0433400.1 9 9978099 T C
Osa09LNT0433400.1 9 9978186 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
Osa09LNT0433400.1 osa-miR5835 Cleavage 4.5 15.102 1 24
Osa09LNT0433400.1 osa-miR1438 Translation 3.0 17.813 1 22
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa09LNT0433400.1 9 apd9 Others Others CDO590 G103
Osa09LNT0433400.1 9 nan Morphological trait Root C711 G103
Osa09LNT0433400.1 9 nan Resistance or Tolerance Drought tolerance R1164 R79
Osa09LNT0433400.1 9 nan Morphological trait Shoot/Seedling RG553 RZ206
Osa09LNT0433400.1 9 clr9 Resistance or Tolerance Cold tolerance RM285 RM434
Osa09LNT0433400.1 9 qAC9 Physiological trait Eating quality RM4413 RM5122
Osa09LNT0433400.1 9 qPC9 Physiological trait Eating quality RM4413 RM1896
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