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

>Osa02LNT0189000.1

GTTGGCAGATTTGCAGTGTTTCGGTTTTTTATTGTTTCGGGGGTCTAAATGATGTTTTCTGTGAAAGTGTATAACTAGGAATTGTAGAAAATTCATAGATCTATCTTCTGACCAAAGGGCGTGATTTTATCTTAAGTGGTTTAGTCTATATGAATTTTTGAGTATGGCTATTGTTTTTATGTCATAATCTGGACATTAGTAGATTGAACTGTTTTTGGAGGGGTTAAACAGTGGAATCAGTCAGGACACCTATAGACAAAGTTGTAGAGTTTTCTCTAAGCTTTCCATATTGGTAAAGTACACTTTGATCGGATGAGTAGAACTCCAGATATAGTTGTTTTTGTGTGTACCCTCTGAAATTCTGGACAGATTCTGAAACCTGTTTTCAAGCGCAAAATAGACCATTTAAATGGCAGAATAAAAATATGCTTTCTACATAAAAGTTGTAGGTATAGTTCTGTAGATTTCCAAAATGTATTTATTTGCAGTCATAGCCTATTTATATTTTGAGATATAAATGTTTGAATCAGCAGTGTTGTTTATAGTCCGAGCGGCGTTCCTTGTATTTGCATGTTAACGGGCTGGGGCCGTAGGGGCGTATTATTTATTTTTTTATATGCATGTTTGAGTGTATATTCTGAGGTTGTCTTGTGAATAGGTGGTGGTGCTTCGGATTATGCTTGGTATCGTCTCTTCGTTGTTAGAGATCATGGCTCGCCATCGATATCCCAGGCTTGCTCAGAGGACGCCATAGGGTTCTGGAAGCCCTTCCTCCACCAGTTCCAAAGACAGGAGGCTTTAGTGAGAACATGATTCCTACTGTATGATTCAATATGAGAAAGGCAACAAAAGTTAATGTCACAATAAAATTGTGGGATCTTGGAGACTCCGGAGCATATGTGGGAGAGATATTGTTGTGAAGTTTCTGCAATTGTTAGGCGAGAGCATAACTGCCCTCCTAATTGTTCCTGATGATTCACGCAGAATGCTAAGTCATCCAGGATTATTGGGACGGGAACATTAATGTGGAACAATTTTTGTAGTGGAGAAAGATTTCACTGACGAGAATGTCACATTTGAGAACTCACCTCCCCAGCGGTAAGGGCATACAGATGTAGTTTGAGTAACAACAGATAGATGTGCCTTCTACAATTGCAGGTGATATTATTACTGGAAGACGAGAAATCGGATTATGTTCCTAGGTCGTCCATGGGAACTATTTGGGAGGCTTGCGTTTGCACACAATTTAGTGTACACCTGAGTCCAAATATTTCAGGGAAGTTAATTGTTAAAAAATTATCACTGTTTTTTCATGGGTGTCAACATAAAATTGCCAGAGATTTATACATAGATCATGGTAATTAAGGTTGGCAATTCTCAATAGACTGATGCTAATGTATCCAGTCTTGCACTTTGGTCAGTGACATTCACATTCCTTTGTAGCACTTCCTGTCTTCCTGCAAATTCTTGAGTTGTCTTTCATGCAGAAAGGTGTCGATACTTAAAAGTTGATGTTTTGCCTCTGGCCATGACAGATTATGTGTATTGCTTGTAGTCTTTTGTTTGGTGAACAAAGTAATCTCTAGAATTGTACTGATTGCACTCGCAGTTGTGAACTTTTGTTCTGACCATGTATGTTTTCATGCATAGAGAAAGAAGAAAATCTGTACCTACTTAAAAAAAAATGGAATACTTCTATTCACATCTCGTTTCGTCAGTCATCCGTCTTGGTAGCGCCCGTTTAGTCCTCTTGATGTGTCGTGAGCGATTGGAGAGCAACAAACAAGAG

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.516892
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa02LNT0189000.1 2 34171609 T C
Osa02LNT0189000.1 2 34172295 T C
Osa02LNT0189000.1 2 34172451 T G
Osa02LNT0189000.1 2 34172542 T C
Osa02LNT0189000.1 2 34172669 T A
Osa02LNT0189000.1 2 34172984 A C
Osa02LNT0189000.1 2 34173405 G A
Osa02LNT0189000.1 2 34173475 G C
Osa02LNT0189000.1 2 34174055 T C
Osa02LNT0189000.1 2 34174859 T G
Osa02LNT0189000.1 2 34174940 C A
Osa02LNT0189000.1 2 34175084 A G
Osa02LNT0189000.1 2 34175351 G T
Osa02LNT0189000.1 2 34175625 C A
Osa02LNT0189000.1 2 34175796 C T
Osa02LNT0189000.1 2 34175969 C A
Osa02LNT0189000.1 2 34176038 G A
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa02LNT0189000.1 osa-miR5827 Translation 4.5 17.19 1 21
Osa02LNT0189000.1 osa-miR7693-3p Translation 5.0 17.311 1 22
Osa02LNT0189000.1 osa-miR1428a-5p Cleavage 4.0 15.311 1 21
Osa02LNT0189000.1 osa-miR1428a-3p Translation 4.5 16.607 1 21
Osa02LNT0189000.1 osa-miR1428a-3p Translation 5.0 18.228 1 21
Osa02LNT0189000.1 osa-miR1846e Cleavage 4.5 19.51 1 20
Osa02LNT0189000.1 osa-miR2095-5p Cleavage 5.0 18.665 1 22
Osa02LNT0189000.1 osa-miR5488 Translation 5.0 24.764 1 21
Osa02LNT0189000.1 osa-miR2275d Cleavage 5.0 15.164 1 22
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa02LNT0189000.1 2 nan Morphological trait Seed C747 C1445
Osa02LNT0189000.1 2 nan Morphological trait Shoot/Seedling RM250 RG256
Osa02LNT0189000.1 2 gn2.1 Morphological trait Panicle/flower RM250 RM208
Osa02LNT0189000.1 2 gw2.1 Morphological trait Seed RM250 RM208
Osa02LNT0189000.1 2 pl2.1 Morphological trait Panicle/flower RM250 RM208
Osa02LNT0189000.1 2 sn2.1 Morphological trait Panicle/flower RM250 RM208
Osa02LNT0189000.1 2 qCHR-2 Others Others RM263 RG520
Osa02LNT0189000.1 2 qDLR2-1 Resistance or Tolerance Other soil stress tolerance RM525 RM406
Osa02LNT0189000.1 2 qDLR2-1 Resistance or Tolerance Other soil stress tolerance RM525 RM406
Osa02LNT0189000.1 2 Hd7 Physiological trait Flowering R3393 R2511
Osa02LNT0189000.1 2 ss2 Physiological trait Source activity RM240 RM213
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