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

>Osa02LNT0180600.1

GTGAAATGCCAATTTACTATACATTTCCTTTGTGGGCAGTATTTATCCTTGTCAACAGTATTTGAACTAATTACAATGTAGGGAGGCCCCTAAAGTCCAACAAAAAGAAACTATATGAAATTACAGGCAGCAGGAGCATCATAGTCGGCAATGCAGTAGGTTCGAGATGCCCAGGACACTAAAATTTATCCTGCTGCTGAAACGATCATGTACACCAATCCAAAATGCAAGACCGACTAACCTCCTGCCTCCAGTTACTCTCAACAACAGATCAACTGGCCATGCATCATGCGTCATCGCAAGCTCTTCCATGTCTATCCATGAATCACTGTTTGTATCCTCTTCACAGATAAATATCGAACGGGGACCCTATGGTTCTTCAGTCTTCAGTTCTTTGTGTATTTACAGAGTCTACCTCTTTGCATATATACATACATGCTCAGATGGGCATGTCCACCGAATGATAATGTGGGAAGTCATTTGTTGTGTGTGCTAACTGATGGACGGCAGAGTGGGTTGACTGAAGCCAAGGCCAGACACCCCATCCAAAGAACCAGGCACTACATGTTTCACTTGCCCATATCGCCTGATATGACGAAGGAGCCTTGCCAGGAAGGTGCTGTGACAGATAGTAGAGGTGTCACATACCACGGTGACATGCCGGCATGCCCTTGTAATAGCCACATTCATGCGCCTGCTGTCACCAAGGAAACCTACCGCTCCCAGTGGGTTTGATCGAACCATCGATATGACAACTGCATCAGCTTCCCTCCCTTGAAAGCTATCTATGGTTGAAACCTCAACCCCAGAAAGCCCTGGATATTCTTCTAGCCTCTCTCTTAACAACTGCACTTGAGCAATGTAGGGTGATTGAACGGCTATCGCTGTTGGAGATACTCCACAATGTACAAGGTTGAGAACATGTTGTGTCACAATATCTGCCTCTCCATCATTATAAAATGAGCCTGTACCAGAAAGGTCTATTTGTTCCCCACAACCAGTGTCCAGGGCCCCATATGGCATTCGAGTATCAAGTAAAAGCAGTGGGCACCGTGTTATCCAGGTAGCCTTCACAACTGGAGAGTCAGCAAGAGTTTGTGAAGCAACAGAATGAGAAGATTTGAGCAGTCCATGATACATCTCTTTAGATGCCCAACTAGCTATTGAGTCATTCATTCTGTGCTGCACTGTCAACCTTGTTGTCAGTAATCCATTGTGCAATGACGAAGCTCTTTCCAACAAAGATTTACCAAGCCCTCCATCTAAGGCCTTTCTTGACAAAATTACTGGTGCAAGCTGGCAATGATCACCAGCGAGAATGCAACGCTTTCCCTGCAATATGGGAATCCAGCAGGAGGGTTCTATTGCTTGCCCTGCTTCATCTATGATTACCAAGTCAAAACAACATGTTCTCCTGATAAGTGGATCGGCTGCCCCTGTGTTAGTAGAAAGCACAACCTGTGCCTCAGAGAGTGCTTCCCTAATCATTTCCTTTTCTTTCTTTTCCAGATCCCTTCCAAGTTGCTTCAGCAGTTGACGAATGCCGGCAGCTAAAGAATCATCCTCTATGCAGTAGCTCAGGTCCTTTCTTAAATCACTTCTCTTTCTCTCAAGCTCCTTCCTGAACTGCTCAAGCCTTCCGTTCACAATCTCCGCCAAGGACTTTGAAGCAACAGATGGTGATATCCGAGCAGGGTTTCCAACTCGCACAATGTTCAAGCCAGTGTTTGACAACCTTTCAACCATGTTATCTACTGCCGCATTGCTAGGAGCTGTCACAAGGACGTTCTCACCCTGTTGGACAGCACGTACAATGAGCTCTGTGAGCAAGACTGTCTTGCCCGTGCCAGGAGGACCCTGGATAATTAGAACAGGCCTCTTCTTGTTCAAGCCTAATGAGAGAGCCTTTAACTGGGAGGCATCTAGTGCATACCTCTCTGATATCCTCGGATCAGGTGCACTTGATTCACCCCAGTCAGTCAGGTGATTCTGCTCCATCTTCATAACATCCTTGTTGTCCCCAAATAAAGTGGCTACTACGCCAATGGATGCATTGCTTTTCTGTAAACCATTCCTTTGAAGAATAATCAATGCTTCAAGATTGCGCTCATATGTAAGAGCATCAGCCAATCCTTGTATACGGTCAATGCGCACACTTTTCCCGAACAGCCTGGAGAATGTAGGATCACCATGGCGGGATTCCAGAGCCAGAGTTATGCTGCAACCATCCTCCCCTAGATTATAAACAAAGCCTTGCATGCAAGAAGTTGCTCCTTCACCACGGCTATTACATGTTCTTACACAGACCATGTCCCCAGGAGACAGTGTGGTTGGAGGCAGCTTGTGTCCGCCTTCAATTCTGAATAGAACCAAATGTAGGCCTCCCAACCCAGTTGAGCTACTGATCACATTCAAGTTGCAAATGGTATCGCACTGCTCCTGCTGAGACTGCCCATGGCTCACCAGGTATTCAACCGGTTTGGGTGGCTCAGAATCATCGTCGAGCATTGGGGCAGCATTCAGCTCCTCCTGTGTGAACTCCAGCTCCACATCCCGTTCAATGCACAGCAGGTCCGACATATGCGTCACATATTGTTCAATCCTTCTCTGCATCAATTTCACCTTGTTGAGGCTTACGCCAATGCTACCGTGCACAGCTTTAGGCCGTGGCACCGTCCTGCGCACAGCCTCCCGATGCTGCACAGAATTGGCCATTTCTTTCAGAAGCTTCCATGACTGTGTCGATCGCCAATCGGAGATGAGTCCCTGGTTCTGGCAACTCTGCAGAACATCACGGAGCTCACGCTGGAAATGATCAAAGAGTGTGGGGTAGTGTGTGCAGGCCTTGAGGCAGAGTGCTTCCAGGCCCTTGGGCATGGGGATGGCCGACATGTAAGGCTGTGCCTGGATCACGAACCCAAGCCTCCCATCTGCAGATCCCCACTCCTGAGCCAATGCCGCCGCGTCGAGGTCCGCCATGTCGCCCTGCAGCTCGGCGGAGGCGAACTTGGACGCCATGGATTGCATCCCTTGCCTCAGCCACTCCACCACGCACCGGCCGAGCTCCTTCCGCCCCAGCGGGTCGCCGTTCTGGTACAGCGTCCCGACCCTGATGGACGCCTCCTCC

Coding Potentia
Explanation CPC Score
noncoding -1.09972
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa02LNT0180600.1 2 29059852 A T
Osa02LNT0180600.1 2 29061274 A G
Osa02LNT0180600.1 2 29061302 T G
Osa02LNT0180600.1 2 29062117 A G
Osa02LNT0180600.1 2 29062700 C T
Osa02LNT0180600.1 2 29062868 A G
Osa02LNT0180600.1 2 29063649 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
Osa02LNT0180600.1 osa-miR5796 Cleavage 4.0 19.362 1 21
Osa02LNT0180600.1 osa-miR319a-3p.2-3p Translation 4.0 16.012 1 20
Osa02LNT0180600.1 osa-miR319b Translation 4.0 16.012 1 20
Osa02LNT0180600.1 osa-miR164e Cleavage 5.0 16.825 1 21
Osa02LNT0180600.1 osa-miR168b Translation 4.0 10.819 1 21
Osa02LNT0180600.1 osa-miR171i-5p Cleavage 5.0 18.571 1 21
Osa02LNT0180600.1 osa-miR2090 Cleavage 3.5 18.197 1 22
Osa02LNT0180600.1 osa-miR2922 Cleavage 4.5 22.971 1 20
Osa02LNT0180600.1 osa-miR5076 Translation 4.0 14.283 1 22
Osa02LNT0180600.1 osa-miR5158 Translation 5.0 14.614 1 24
Osa02LNT0180600.1 osa-miR5486 Cleavage 4.5 21.888 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa02LNT0180600.1 2 qSDW2 Resistance or Tolerance Cold tolerance RM263 RM6
Osa02LNT0180600.1 2 nan Morphological trait Panicle/flower RG139 CDO686
Osa02LNT0180600.1 2 oa2.1 Resistance or Tolerance Drought tolerance RM263 R3393
Osa02LNT0180600.1 2 nan Physiological trait Eating quality RG139 RZ58
Osa02LNT0180600.1 2 qGRH-2 Resistance or Tolerance Insect resistance C621 C601
Osa02LNT0180600.1 2 nan Morphological trait Seed C747 C1445
Osa02LNT0180600.1 2 qPH-2 Morphological trait Dwarf RG324 RG83
Osa02LNT0180600.1 2 qLTSPS2 Physiological trait Sterility RM1385 RM240
Osa02LNT0180600.1 2 qLTSPS2 Physiological trait Sterility RM1385 RM240
Osa02LNT0180600.1 2 qGY-2b Resistance or Tolerance Drought tolerance RM526 RM525
Osa02LNT0180600.1 2 qTGW-2a Resistance or Tolerance Drought tolerance RM526 RM525
Osa02LNT0180600.1 2 qSB-2 Resistance or Tolerance Sheath blight resistance G45 RZ273
Osa02LNT0180600.1 2 qCHR-2 Others Others RM263 RG520
Osa02LNT0180600.1 2 nan Physiological trait Eating quality C621 C370
Osa02LNT0180600.1 2 nan Physiological trait Eating quality nan nan
Osa02LNT0180600.1 2 nan Physiological trait Eating quality nan nan
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