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

>Osa02LNT0186900.2

GTCTAGATTCATTAACATCTATAAAAAAAAATATGAACAATGCTAGAAAGTCTTATAATATGAACCATTGGGAGTATTTCTACTGAAAAATTCATCCGGTAGGATGTTGTATGCAGTACGTACAACAGTGATGTCATCACTCATGATTTCATCTTCTTGGATGGTCCCGTCGTCCCTTGCTTCTCAATGCCAACCTTTCTACGAACACCGGAAGGCAGGCTCTCTACTTTGGAAGAACTCGTTGCACGATCCCTTCCTTTTTGGCTCATGAATTCTCTGAATGATGGTATCTTGGGGAGCTCCATATTTTCAGATAAAACCGCCACCTTTGCAATCTCGTCAGAATGCTCCGTCGTTACAAACTCCTCCGTGTTGTTCTTCAGAGGTATGTCCTTAGCTTCGTTGCTAGTAGCTTCTCCAGGGATTTTACAGATTACATCAGGAGATGCTGGAGGAGACTCTGGGACGATGGAAGGGGAGCTTGCCGCAGCACCATGATCTGTGATTTGGTCAGCAAGGGCGTGGAGGCGGTCCTGTATCTGGTCGAGGCTCGAAGACGAAAGCCACCGAACTGTGGCGGCTATCTGCGAGTTGTAGAACGTCTTGCCCACTTTCTCGTACTTCTTGAAGCACTCTACCTCAAGGTGTGCTGCAGAAGGCTCTTCATCAAACGGTAGATTCCCAAGTCGCAACTTTGCTTGTCCAAGGCCATTCAACAATCGCTTTTGGCTTGCATCTCTTAGTGTCTGAGATATGCTCTTCTTGTCAACAAGCTTCCCACCCTGCTGCTTGGTCTGACCTTTAGCTTGATAATAAGCATTTTCAGCACGCTCCAATGCTTCAAATTTTGCATCTAGCCCTGCTTTTGATGGGAGCTTTGAAATGGCAGTATTGCTCACCACCTCCTTCCCATCATCGGAATCAGATATATCTTCAACTGATATGCTTGCATCATCTTCACGATTCCAAAATTCTGTCTCCATGTGTTTTGGATTAGCCAACGAGCTTTTGAAGACTGGGGATATCTTGTTATAGCGACAGGTGGGCACACGACGAAGTTCCTCCAAACGTGAGGACACTAGATTTGGGTGTTTGCAAGCATCACATGAGCGTTGGCATAAAGTTGGTTGTACCTTCTCCCCAAAGCTCTCAATGATCATTTTTCGTCGGCAGGTAGAATTTTCGCAGTAATCAATTATCTGACTAAAGTCGGCTAAGGCCTTCTCTGAAAGTTCAGTTGAAGAGGACGATAACTCTGACTTTTTGTTCTTGGTGTTTCTCAAAATAAATTCCATTTTCTTTCGGTCATCTAATCCATAATATAGAACACTTTTGGAAGGCTGTTGGTCACGGCCAGCTCGTCCTGACTCCTGGTAGAAGGCTTCCATGGACTTAGGCAAGTTATAGTGACACACAATACGGACATCTTGTCTATCAATACCCATTCTGTGGAAGGAGAATCAACATATCAATGCACACGAAGTCCCGTATTGAAAGAGGCGATGTAGAGGGAAACAGAGTAAGAGCCTCATTTGGAAAAAATATATAATATAAGTACAGAAGCCAAAATCAATCATAAACAAGTACTACAGGTTGGAAGGTAATAAGGTAACAGTACTCAGATACTACATGTGTGCTGGAACTTGTAGACATGGAATCAGCATGTCACATAACAGAAATGATATTTCAAATGATGTGGAGGGAAACTATACCCAAATGCAACAGTGGCAACAACAACTTGAGTTCTCGAGGAAAGCCAATCATCAAGAACAGAACTCCGCACCTTGCTATTTAGGCCAGCATGATAAGCAGCAGAGGAGATACCCTGCTGTGACAAATGCATAGTTAGATCATCACAAACCGCACGTTCAAGACAGTACACAATTGAGCAAACATTTCCACTGGACTTCAGTAAATTTGATATGTCAGAATAAACGTCATCAAGGAGATCCTTGTAGCGAACTTCATAGAATATATTAGGCCGATTAAATGATGCCCTAAGAATTAATGGATTTCTCAAGCACAGTGACGATATCACATCTTTCTGGACTTTTGGAACTGCGGTTGCAGTTAAAGCTAATATAGGTATGTCTGGGAACTGGTTCCTCAGTGATGAAAGCTTGCGGTAACTAGGTCTGAAATCATGGCCCCAAGTTGAAATGCAATGAGCCTCATCAATAGCAACAAGACCAAGGAGACCTCTATTGTAGAGCTTTGTTAGCTTTGCCTTGAACCCAGATGTTGCAACCAACTCAGGAGTAACATATAGCAATTTTAGAGAAGGATTACCAGAATCAAGGTCTTCATGTATCTTTTGTTTATTGTGCGATGTTTGTGTTGACGAGAGAAACTCAGCTGGAATACCTTTGCTTTTCAAGCTGGCAACCTGATTCTCCATTAGTGCTATCAAGGGTGAGATAACAAGAACAATGCCTGACTTCACTAGAGCAGGAATCTGATAGCACATTGATTTTCCACCTCCAGTTGGCATCAAACAAAAGCAATCCCTTCCTGAAAGAACAGCTTCTATAGCCTCTAGTTGCTTTCCTCGAAAGCCTGAATATCCGAAATGTTGCTTCAAGACGTTCTCCAGCTCCTGAGGAGCTTTCTTTCCATGCCCAGATCCCGAGGCCCCCGATGCACCTTTTATGGGAAGTTGTCTCTTCATTTTTCAGCTACGTTAGGTCAGCGGCGACGGCGACGGCGATGGCGCCGCTGCGGTGGCGCACGCGCCGGCAGCAGCAGCAGAGGGCACCGGAGGCGACGGCAGGAAGGCGAGCGAAGTCGGCGAGCCGGAGAGAGACGACGAGGCTTGCGAGGC

Coding Potentia
Explanation CPC Score
noncoding -1.05509
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa02LNT0186900.2 2 33084809 G C
Osa02LNT0186900.2 2 33084905 G C
Osa02LNT0186900.2 2 33085454 T C
Osa02LNT0186900.2 2 33086255 T C
Osa02LNT0186900.2 2 33086315 G A
Osa02LNT0186900.2 2 33086557 C G
Osa02LNT0186900.2 2 33087400 G A
Osa02LNT0186900.2 2 33087568 G C
Osa02LNT0186900.2 2 33087816 A T
Osa02LNT0186900.2 2 33088093 A G
Osa02LNT0186900.2 2 33088570 T C
Osa02LNT0186900.2 2 33089427 A T
Osa02LNT0186900.2 2 33089513 T C
Osa02LNT0186900.2 2 33090089 A G
Osa02LNT0186900.2 2 33090137 T A
Osa02LNT0186900.2 2 33092485 A G
Osa02LNT0186900.2 2 33092879 A T
Osa02LNT0186900.2 2 33093338 A T
Osa02LNT0186900.2 2 33093705 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
Osa02LNT0186900.2 osa-miR5790 Translation 5.0 20.298 1 24
Osa02LNT0186900.2 osa-miR1437b-5p Translation 5.0 20.769 1 21
Osa02LNT0186900.2 osa-miR172a Translation 4.5 15.03 1 21
Osa02LNT0186900.2 osa-miR172b Translation 3.5 15.03 1 21
Osa02LNT0186900.2 osa-miR172c Translation 4.5 15.03 1 21
Osa02LNT0186900.2 osa-miR172d-3p Translation 4.5 15.03 1 21
Osa02LNT0186900.2 osa-miR1428a-5p Translation 4.0 22.36 1 21
Osa02LNT0186900.2 osa-miR1432-5p Translation 4.0 20.743 1 21
Osa02LNT0186900.2 osa-miR2275a Cleavage 5.0 12.477 1 22
Osa02LNT0186900.2 osa-miR2275b Cleavage 5.0 12.477 1 22
Osa02LNT0186900.2 osa-miR395t Cleavage 4.5 18.288 1 21
Osa02LNT0186900.2 osa-miR395c Cleavage 4.5 18.288 1 21
Osa02LNT0186900.2 osa-miR395a Cleavage 4.5 18.288 1 21
Osa02LNT0186900.2 osa-miR440 Cleavage 5.0 23.194 1 24
Osa02LNT0186900.2 osa-miR395x Cleavage 4.0 18.288 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa02LNT0186900.2 2 Hd7 Physiological trait Flowering R3393 R2511
Osa02LNT0186900.2 2 ss2 Physiological trait Source activity RM240 RM213
Osa02LNT0186900.2 2 sk1(t) Morphological trait Seed nan nan
Osa02LNT0186900.2 2 nan Morphological trait Seed C747 C1445
Osa02LNT0186900.2 2 qCHR-2 Others Others RM263 RG520
Osa02LNT0186900.2 2 qDLR2-1 Resistance or Tolerance Other soil stress tolerance RM525 RM406
Osa02LNT0186900.2 2 qDLR2-1 Resistance or Tolerance Other soil stress tolerance RM525 RM406
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