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

>Osa07LNT0375100.2

AAAAAAAACGTTGCAGGATTGTTATAAAGATGTACAGTTTGTATCACAACTAAGAAGGGTACACAGAGACAGCGTTACATCACGGTCATCTTAGACTATGTTCACTCACGTTTACAACCGAAACAATGCAACTCCGATAAGCTAATGAATCCAGCAATGTTTCAAAACCTCCTCTGCTTCTGCTCCGTTAGGAGCTGCCACAAATTTAAGGCTGGACAGCTTCTAGGAGCTTCTCATACACTTGCCGTGCTGACAAATCTTCAACAATCAGAAGCTTCGACTTATTATTCCATCCTCTTTGAAGGGTCATCTGACTGAGTCTTAAGCCAAGAACCTTGCCCATGAACTCTAGTAGTTCGTTGTTTGCTTCCCCTCGAGCAGCAGGAGCAGCAACTGTTACTCGAACATCATCAGCATTCACTCTTGTTATTGCTGACCGTTGTGCCCGGTCTTCAACCTCAATGGCTACTTGGACAAGGCCACCTTCCAATTGTGTGATGCAAGGTGGTACAGGTGCATCATGTGGATTTGTTTCAGCCGCCACTGAGCTTAGTGCTCCATCAACAACATATATGAATGGAGCTAGCTCCAACTCCTCTTCTGATCGGTAACAAACGAAAAGGCCGCATCCCAAACAACTCATACGGAACTGCTTTTCAAGCTTCCCTTCTCCCCGTTTCAACAGGACCTTTCCTGCCTCCTTCACATTTAGCCTTGAGAGATGTTTTTTCTTGTCTAGTACATGTGCTCTGTCAGTCTTCCTCTTTGGCATTTTCTGCAATTGGGTATCTTTAGAATAAACACATCAGAATGGGGAAATTTCCAGACAGTTACAGTCTCAACAATAGATACTAAATACAAAATCATGTTCCTTAAACTTAAAAAATGGTGAGCATTATATAGCACGGCAATTAATTTTGTGATCCCAAATATCCTTTGGCAGGTTAGCAACTAAATAGAATGACTCAATATGTCATAAAGCACAATCCCTCCAGTTGAAGATAGAGTTGCAACAGTTACAAATGGCATTCATATAACAAGGTGGTAGGCTTGCAGATAGTAGCTTTGGCTAATTCTCTAAGAAACGAAAATCAGGAAACAGAACCCAAATCCACCACATTGTTGTTGGCATGATTGAAGGATTAGATTCAACTTCTGAGTCAGTTATTGAGCTGAATCAAAAGGAATAGATAAAAGATATGAAGAGCCTAATAACTTAACATGGTTGTTCCCCGGACATCTAGTGTAGTTAATTCCAAAGAGGTTTTAGCCCATTTACCAAACAGGGTTCAAATGAAATTCGAAAATTTTTCTGGTGGATTAGAGCTGCCAAAAAACAAGAATTATCATAGACTACCAAGTATGCTGCTGACCTAGCAGAACTGAAGCACTATAATTGGTCCCATGTAACCTACTTGCTATCAATTAGATCATTATGTCGTGCAAAACAGACCTAATTTCACTTGTTTACGTAACAATCATCTTCAAATGGCATATCTTTAGGATTAGGGCTCAGATTCCAGTCAATAGCATAACAGCAAAATCTACCCAAATCACTAACCAAAGGAAGAATACAATACGCAGTCACCCTTGCAAACACTCTGCATCTCTAAAGTTTTTTGGTTTAATTCTGGACAAGTTTCATGAAATGGAGATTAACATAAGACATTCAGATTGAACAAAAGTTCACAAGCAAGGCCTAGGGTAAAAGACAAAATAACCACTAACATCAATGAATAATTCCTTCGTAGAAATAGGAGACTAATCTACATGGATAGCCCAGCCTCTGGTTTTCTGACTCCCACATTCTGTTGTACAAAACAATACCAACACACCATGCAGAACACTAAAAACTGATTCTGGTGAGCTCGGATAAATGCACTACTGTATGTGGGCCTATATCACAAGTTTGCTACAGAAACAGGTCTACAGTTCTTATCAAACAACAATTGGTATGCATACATAACAATTTTATTTGATCCCAAAATGGTAGGTGGTTTCAAGTATACTTGTAAACAACATATACTATATGCAGAGAAACAAGACCAGATTTGTTCGTTCATCGTTGTAATATAAGCAAGCGTGAAAATCTGCAAGCTAGAACCCACACAAAGAACATGAATTCTCTAGAAGGTGAAATCCTATGCTCGCTGTGCCTGTGCTGCTCATGCTTGTGAGTAATTCGCAATGATTAGATCAAAACTACACCTAAAGATTTCCCACTGAATGCTGAGCTGTATACTAGTGTAACATAGAACTAATCCAGAAGAGTAACACGGATCTGGTAAAATTTAGCAACCTGAGCTCTTGGGCGAACAAGAAGGGGAATTCCCCAAAAGGGGAAACGAACAGGAGGGAGGGGGAAAGAAGCTGACCGGTGATGAGGACGTGGGAGGCGCAGTGCTTGCAGTAGTAGACGAAGAGGTCGGACTCGGGCCCCTCCGGCAGGGCGTCCTCGCTGGAGTACGTGTGCGTCGTCCGCTTCGGCATCCTCCTCTCCGCTCAGCTTGCTGCGCCGGCGGGGAATATGCCCCCGACAGAGGTATAGCACGGCTGCTCAGGCGGGCGCACCGTCGAGGAGGGATCCGCGTCGCCGGCGATGGGTGGGGGGCGGGGCGGGGCGTGCGGTGGGAGACGACGGCTGTAGCAGCGGCGGCGAGGTTGGT

Coding Potentia
Explanation CPC Score
noncoding -1.18465
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa07LNT0375100.2 7 11516943 A C
Osa07LNT0375100.2 7 11514765 T C
Osa07LNT0375100.2 7 11514878 G A
Osa07LNT0375100.2 7 11515213 T C
Osa07LNT0375100.2 7 11515314 C T
Osa07LNT0375100.2 7 11515725 G A
Osa07LNT0375100.2 7 11515917 G A
Osa07LNT0375100.2 7 11516265 T C
Osa07LNT0375100.2 7 11516698 A G
Osa07LNT0375100.2 7 11517827 G A
Osa07LNT0375100.2 7 11514956 C T
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa07LNT0375100.2 osa-miR166a-5p Cleavage 4.5 17.905 1 21
Osa07LNT0375100.2 osa-miR166c-5p Cleavage 4.5 17.905 1 20
Osa07LNT0375100.2 osa-miR166e-5p Cleavage 4.5 17.905 1 21
Osa07LNT0375100.2 osa-miR399e Translation 4.0 12.58 1 21
Osa07LNT0375100.2 osa-miR399f Translation 4.0 12.58 1 21
Osa07LNT0375100.2 osa-miR399g Translation 4.0 12.58 1 21
Osa07LNT0375100.2 osa-miR399h Translation 5.0 12.58 1 21
Osa07LNT0375100.2 osa-miR399k Translation 4.0 12.58 1 21
Osa07LNT0375100.2 osa-miR168a-5p Cleavage 5.0 18.966 1 21
Osa07LNT0375100.2 osa-miR415 Cleavage 4.0 21.138 1 21
Osa07LNT0375100.2 osa-miR419 Cleavage 5.0 16.109 1 21
Osa07LNT0375100.2 osa-miR2099-3p Cleavage 5.0 11.618 1 20
Osa07LNT0375100.2 osa-miR2868 Cleavage 4.5 12.459 1 20
Osa07LNT0375100.2 osa-miR5337a Cleavage 5.0 17.364 1 21
Osa07LNT0375100.2 osa-miR5337a Cleavage 4.0 11.154 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa07LNT0375100.2 7 nan Resistance or Tolerance Insect resistance RG773 CDO59
Osa07LNT0375100.2 7 rn7a Resistance or Tolerance Drought tolerance C39 RM214
Osa07LNT0375100.2 7 qHd-7 Physiological trait Flowering RM125 RM432
Osa07LNT0375100.2 7 nan Physiological trait Flowering R2401 R1440
Osa07LNT0375100.2 7 hwd2 Physiological trait Lethality nan nan
Osa07LNT0375100.2 7 gp7a Morphological trait Panicle/flower R1440 RG128
Osa07LNT0375100.2 7 tp7b Morphological trait Culm/leaf R1440 RG128
Osa07LNT0375100.2 7 gw7 Morphological trait Panicle/flower R1440 RG128
Osa07LNT0375100.2 7 yd7a Morphological trait Panicle/flower R1440 RG128
Osa07LNT0375100.2 7 qah7 Physiological trait Flowering R2401 C1226
Osa07LNT0375100.2 7 dth7.1 Physiological trait Flowering RM125 RM336
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