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

>Osa07LNT0375700.4

GGTGCCTTAGCACATATCTGATTTTACTGTTTTTTCCAACACAAGAGAAGCAAATTGCAGTACATACAACCAAGTATAAAATAAGATGGTCTGGACAAGGTAGGAAATCACTGATACTAAACTAACCTAGGTATACAATGATACTGTTAGAGGGGTTCTCCCTTCAAGAAAGGCAATATTTTGCTGTCGAATATTTGGCCTACTCCAAGCATCAAAACTTCAGAACGCAACGAAGAAAAGACCAGCAAATGTTGCTAGTCCTCATCAGAATCACCAAACGTAATCTTTGTTGATTTAGGAGCATCTGCTTTGATTTCTTTGAAATGAGATCCATATATTTGCGATTCCTTTTTCTTGACGTGTGTGCCAAATTTTGTAAGTGCAGGAGGAACGACCTGACCAGCCTCCCGCAAAACATTGACAAGTTCACCAGCAAGTCCCTTGTTCTCTTGAGTGAAGAAGGTATGTGCAACACCTTTCTTGCCAGCACGACCGGTCCTCCCAATCCTGTGGACATAATCCTCTGTAGTCAAAGGATAGCTATAGTTAATGACAACTTCGACATCTGGAATATCAAGTCCACGGGATGCGACATCAGTGGCAATCATCAAAGGACATGACCCTTCTTTAAATAAAGATAAAGCTTTCGTCCTGTCATGCTGTGCCTTATCTCCATGAACAGAAACAGCACTCCAACCCCTTCTTTGTAACATTGTTTCTACTCGCGTAGCTTCTCTCTTGTACAACACAAAAACCAACACCCTGTTTCTCTGTGCTTTATGGTATTTATCGAGCAAAGCAACTAATCTTGAATCCCTTGACCTGTCATCCAATACTTCAACAATTTGCATCACATCATGGTTAGCAGCAAGATCTTCTGATCCAATAACAACCTTTATTGGATTTGGATCCATAAACTCTTGGGCTAGCTGGTGGACAGCAGGAGGCCATGTAGCACTGAACATAACCGTCTGACGTACAGATGCAGTTTGGCTTAAAATTGCTCTGACTTCAGGTTCAAAACCCATATCCAGCATTCGATCAGCTTCATCTAGAACCTGCGTTTCTCTCTAAGCTTGTCCCATGTTAAGAATCTTAGGGTCTGTTTGGTTGTTGCCTAACATTGCCACAACTCAATTTGCCATAGGTGTGGCATGGCAAACAAAGTGTGGCCAACAATTTGTTAGGTGCAATGAAGTTCTCCGGCCTCCAATGTAATACAACAAATAGATTCAACAACACAAAAGAAACATCATTAAGACGACAAATACCCATTTCAATAAGGTCTTTCATACGACCAGGTGTCCCTATGACAATATCCACTCCAGATTTAAGGGCAGAAATTTGTGGTCCTTTGGAAGTTCCACCATAAAGGCACACTGAACTTATCCCACATGGTGCACCAGCTTCACAAAGTACATCTGCGATCTGCTGAGCAAGCTCTCTCGTTGGCGATAGCACGAGGACCCGTGGCACCCCCTTCTTAGCAGATTTCTCCCCCATTTTCCTCCTAACGTGCATCAGAGCCGGCACACCAAACGCAATCGTCTTCCCAGATCCGGTGGCGGCGATGCCGATGAAGTCACGACCGTCGAGGAGGTAAGGCCAGGCGTACGCTTGGATGGGCGACGGACGCTCGAACCCCTTGCAGCAGTCGAGCACCTGGGGAGGAAGCGCGGTGGCGGCGAAGGATGACAGCGGGGCGTACTTGGCGTCCGCGGAGCCCTTCCCGGTCACGGCCACGACCTTCCCACCGCCGTTCTCCGCCTCCTCTCCTTGGCCCAGATCGCCCTTGGCCCTCTTCTTCTTGCTGCTCTTCGTCGCTTCATCCGTGGACGTGGCCGCAGCCGCCTCCACCACCACCACCTCGGCCTCCGCCTCCAGCTTCCGCTTCTTGTCTTTCTTGCTCTTCTTCTCCTTCTTGCTCTTCCTCGATACGTCCTCCTGCTGCTCGGGAAGCATACTGCGACCCATCTCAGCGGCGGTGACGGCGGAGGAGGTGGTGGTGGTAGAAGAGAGGAACGAGGGCGGCGAAGACGGCGGGAAGGTGAAGGAGAAGGGGAAGGGGTGGTTGATTTCTAGGGTTTAGAACGACC

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.323857
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa07LNT0375700.4 7 11890535 T C
Osa07LNT0375700.4 7 11887735 T A
Osa07LNT0375700.4 7 11888039 T C
Osa07LNT0375700.4 7 11888309 C T
Osa07LNT0375700.4 7 11889576 A G
Osa07LNT0375700.4 7 11890330 A G
Osa07LNT0375700.4 7 11890504 G A
Osa07LNT0375700.4 7 11890775 A G
Osa07LNT0375700.4 7 11891321 G A
Osa07LNT0375700.4 7 11891418 A G
Osa07LNT0375700.4 7 11891518 A T
Osa07LNT0375700.4 7 11892062 G A
Osa07LNT0375700.4 7 11892345 C G
Osa07LNT0375700.4 7 11892395 A T
Osa07LNT0375700.4 7 11893106 T C
Osa07LNT0375700.4 7 11893107 G A
Osa07LNT0375700.4 7 11893417 G T
Osa07LNT0375700.4 7 11893488 G T
Osa07LNT0375700.4 7 11893514 C A
Osa07LNT0375700.4 7 11893640 C T
Osa07LNT0375700.4 7 11893711 A C
Osa07LNT0375700.4 7 11893887 G A
Osa07LNT0375700.4 7 11890737 C T
Osa07LNT0375700.4 7 11894199 C T
Osa07LNT0375700.4 7 11889715 T 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
Osa07LNT0375700.4 osa-miR5526 Cleavage 3.5 16.66 1 21
Osa07LNT0375700.4 osa-miR5819 Cleavage 3.5 19.52 1 21
Osa07LNT0375700.4 osa-miR5821 Cleavage 5.0 22.677 1 21
Osa07LNT0375700.4 osa-miR164e Translation 5.0 5.484 1 21
Osa07LNT0375700.4 osa-miR408-5p Cleavage 4.5 15.298 1 21
Osa07LNT0375700.4 osa-miR419 Cleavage 4.5 22.412 1 21
Osa07LNT0375700.4 osa-miR1849 Cleavage 4.5 16.67 1 21
Osa07LNT0375700.4 osa-miR2864.1 Cleavage 4.0 19.236 1 21
Osa07LNT0375700.4 osa-miR2864.1 Translation 4.0 12.502 1 21
Osa07LNT0375700.4 osa-miR2873b Translation 5.0 21.204 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa07LNT0375700.4 7 gp7a Morphological trait Panicle/flower R1440 RG128
Osa07LNT0375700.4 7 gw7 Morphological trait Panicle/flower R1440 RG128
Osa07LNT0375700.4 7 tp7b Morphological trait Culm/leaf R1440 RG128
Osa07LNT0375700.4 7 yd7a Morphological trait Panicle/flower R1440 RG128
Osa07LNT0375700.4 7 dth7.1 Physiological trait Flowering RM125 RM336
Osa07LNT0375700.4 7 qah7 Physiological trait Flowering R2401 C1226
Osa07LNT0375700.4 7 nan Resistance or Tolerance Insect resistance RG773 CDO59
Osa07LNT0375700.4 7 rn7a Resistance or Tolerance Drought tolerance C39 RM214
Osa07LNT0375700.4 7 qHd-7 Physiological trait Flowering RM125 RM432
Osa07LNT0375700.4 7 nan Physiological trait Flowering R2401 R1440
Osa07LNT0375700.4 7 hwd2 Physiological trait Lethality 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