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

>Osa02LNT0184700.1

AGCACAGTAATAAAATTTGTATGAAATAAAACCGTACGAAGTGATCATGGTTTTTCACAACTCATTTCGAACTTCAACCCTGCTATCTGTTATTCCTTAGTCCTTATATATATTACGACTCATAGATTCTGTTTTTTATTATCTTCTCAACCTCAGCAGCCGTCAAACGCCTTATACCATACTCCCTCAGCCGATTGTTATCTGTACAAGCTCCATCTCTTAGCTGCTTCTCATCAATATCCAATAACTTCAATCCCTCAGACAGTCTTGGAAAGAAGCCTTCAGGCCTCATACACCACGCAGAAAAAGCAGCAAACAATATACTCAGATCACCATGAAGTCTTTCCACCCCGCCATTACTAAACTTTGTGCTGCCACTGAAAATTCCAGAAAAGAGCAGCTGGTCTACTCCACTTGCCACAGTTCTCCACACAGTCACAAAATCCAGGACATTTAGACCATCTTCCAGCTTAGCTATCCGTCCTTGCATGTAGTCTAAACATTCTACGAATGCCCTGGATAATGTTAACCCTTCTGATTTCTCCTGCCACTGCCTTTTATTTTTCAGATAATCCCTTGACCGGGCATCAAAATCCCTTAAAATGACGGTAGAAATCTTTTCAGTCCATTGTACTCTAAAATCTTTCAGTTGATTTATCTCCACTTGGAAGATACATTCGCTACGGCCATCTATATTTTCCATCTCAAGAAAGAATACATCATTGCACCATTCTGTCAATGTGGACTCAAGGTATCGAGCTGCATTAATGGACTGTGATACCTTGAGAAGAGCATTATCATCTGCCAGAGCTGTTAATCCCTCTGCTTCTTGGCACCTTTGAAGCATCCAGCCAAGGAACTCTGATAATAAAGGTGAAGTAGAAATCTTAATGAATTCTGCTCTAAGTGCTATATTTGGAATGGGCCGAGCACGATCTATTAGCAAGGACAGGCCCTTTTGGATTACACCGGTAATTGCTGGAGACTTATAGTCATCTGAACCATATTCAAGCACTGTTCCTTGAAACCTTGTATTCCAGTTTTTCTCATTCTCCATTGATAATCTCAGCTTATCATGAGTATCCTGTCTCTCAATCTCTGCCCATATTTCAAGCCAGTCTGGCCGATCACAGAAGACGGAGAGAACCGAGATCCTCTGCCAATTATCATCATCCTTCACCGAAAGTAGGAGTCCTGAACTTGAGATCAAAGCTTGGGTTTGCTTGTCGAAAGATATCATCAGGTCAATAAGATTAAGCCATGAGACTCTAGCTTGAGATTGTTTGCTGCTAGCATCAGCCGAGCTAATTTCCTGAAGAAGTTCAATATGCTTAGGAAATATCTCTTTCACCAAGTATGTCGACAATGTGATGACCATTCCAGAAATCCACTCTTCTCTGCAACTATACCCTACAAGGTTAGCTTTATCCACAAGGGGCTGTAATATCTCATCCATGGAATCTACAAAGTCTCTAGTTATCTTATAAGCAAGAGCAAAAACAAACTCAGGCTTTTCAACCCATTTGGAGAAATGGCGTTGTGCGGCAGCAGCTATTGGATTTACTAACTCTTCAATTACCCATAATGGTTGACGTAGTTGATTGTTGACAATGTGCCCTTCTAGCTGTCGAGCTTTTCTACGTTTTTGCAATTCCTGCAAACTGCATAGCGAAAGAAAGCTCTCAGAATACTTGCTTTTCAGGTCACCCTTCATTGAAAATAAGGGGTTCACAATCTCTGATGGTTTCCCAGAATTAATACTAGAAAAATTTGTTCCAGAAAGTGATGGAGGCCAGCCAAGGGATGCCAAAAGAGCTCGATGATCGACAATTGCTTGTGGTCTTAGTAGAGCCAAAGATCGGTCAACTCTGTGATCCACTGCAGAAACAAGGCGAGTCCATTGTGGTCTGGTCTTTGTGACTGAAGATAAAATATCTTCTATTGTTTTAAGATATCCAATAGGAACATGATATGTTTTCAGTGAACTTTCTGCACGAGATTTAAGTTTTCCGGTCACAGAAGATGAAACAGCATCTTCTACGTCGCCGACAAAACTGTCAAGCTTTAGCGCCGTTTCGGCGTAATCCCTGACCAACTCCACTCTCGCCACCTCTTTGGCCAGAGAAGAAAGTTGCTCAAACAACATCTCCTCGCTCCCAACCTCCACCGCTTCTGGTTCAGAGGTGGAGGCATTCAGGGCAGCGAGGCAGCCGCGGACATTACTCAGAGCGGTGCCGGCGGCGCTGCAGCTGGAGGAGTAAGCTGCGGCGGCGGCCGCTAGGCGGACGGAGAGGTCGGATACCGAGGCCTCGAGCTCCGCGTAGCGCCCGCGGATCTCGGCCTCGACGTCGGCGGCCGCGGCGAGGTCTGCTTGCGAGCGGAAGCGGGAGTCGAGGAAACGGCGGAGCTCCGGGGTGATGTCCGCGGGTCGCGGGAGCACCGCCGCTTCCATGGCGGGATCGATTAGGGTTTGGATCGGGGATAATAGCAGCGGAGAATCTCGAGATTGGGCGAGATGGCAAGGAGGAAGACGAAGA

Coding Potentia
Explanation CPC Score
noncoding -1.20487
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa02LNT0184700.1 2 31434396 C T
Osa02LNT0184700.1 2 31434287 C T
Osa02LNT0184700.1 2 31434439 C T
Osa02LNT0184700.1 2 31435391 A G
Osa02LNT0184700.1 2 31435476 T C
Osa02LNT0184700.1 2 31436221 T C
Osa02LNT0184700.1 2 31436681 T C
Osa02LNT0184700.1 2 31437356 T C
Osa02LNT0184700.1 2 31437388 A 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
Osa02LNT0184700.1 osa-miR5337b Cleavage 4.5 13.971 1 21
Osa02LNT0184700.1 osa-miR437 Cleavage 4.5 20.29 1 21
Osa02LNT0184700.1 osa-miR1847.1 Cleavage 3.5 19.273 1 21
Osa02LNT0184700.1 osa-miR1847.1 Translation 5.0 13.337 1 21
Osa02LNT0184700.1 osa-miR1854-3p Translation 4.5 17.022 1 22
Osa02LNT0184700.1 osa-miR5492 Cleavage 4.0 17.334 1 21
Osa02LNT0184700.1 osa-miR1860-3p Translation 4.5 16.661 1 22
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa02LNT0184700.1 2 qLTSPS2 Physiological trait Sterility RM1385 RM240
Osa02LNT0184700.1 2 qLTSPS2 Physiological trait Sterility RM1385 RM240
Osa02LNT0184700.1 2 qCHR-2 Others Others RM263 RG520
Osa02LNT0184700.1 2 nan Physiological trait Eating quality C621 C370
Osa02LNT0184700.1 2 qDLR2-1 Resistance or Tolerance Other soil stress tolerance RM525 RM406
Osa02LNT0184700.1 2 qDLR2-1 Resistance or Tolerance Other soil stress tolerance RM525 RM406
Osa02LNT0184700.1 2 nan Morphological trait Seed C747 C1445
Osa02LNT0184700.1 2 qER-2 Physiological trait Eating quality C370 C601
Osa02LNT0184700.1 2 qEL-2 Physiological trait Eating quality C370 C601
Osa02LNT0184700.1 2 qWA-2 Physiological trait Eating quality C370 C601
Osa02LNT0184700.1 2 nan Morphological trait Panicle/flower RG139 CDO686
Osa02LNT0184700.1 2 Hd7 Physiological trait Flowering R3393 R2511
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