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

>Osa07LNT0379700.1

AGATCAGCTATCCTGAGATGTAAGTGAGCTAAAATTGGTACAGCGTTAGAAGCTCACAGGACAAAAGTCTGGCTGATTAAGCGTAAACTAGACATAAATTACAAATTGCCTTATGTTAGCTCCACCAACCCATGGCATGTCTAGAATGACGCGAGATTAATTGTTGAATATCAGTGACTGCTCTGCTCCCAGATAAATTTTTTTAACACTTCTGGTTCAACCATCTGTCTGAGCTCCATTTCAACATCGAATTATCCACAAGTGCATATGAGCACGCCCTATAGTTGATTCCGCATCCCAGGAGCCATTCTTCGTCACAAATATATGAAGTGATCCCAAATTCGGCCATAATCTTCACCGTCTAATTCAATCACTCAGATCGTTCTCGCCTGCGCTAGGTTGCACTGGCCTCTGCACTGGCTCATCATCCTCAGATTCTGACCAGGCTCGTCTCTTCCGTTCTATGGCAGATTGAGGGTGTCCCATGTCATCTTCTTCAGCATCAGAATCTTCAAGACCTGCAGCAGCAAGAAGGTGACCTGGGGCTTTCTCTGAATCGCCACCATCGTTACTCCTCGCCGTGTTTGCATAATCATCTTCTGCTTCTGGTTCATCTCTATATTCGTCTTCTTCCTCTTCCCCATAGTGTGCCTTTGTCTTCTGATCCTTCCTTCTCCTACCACCCTTCTTCCTCCTCTTTTCACCTCCCCCCTCTTCATCTTCATGCTTAGACCTATCTTTTCTCTTGCCAGGAGTGTTACTTGAGGTTTTCCATTGCTCCTTGACACGCTCAAAGTGTTGCTCCTGTTGCATTACTTGCTTTAGCTCGTCCTCTTGCTTCCTTCTTTCTAACTGGGCCTTCCTCTGTTCTTCAGCCTTGCGGCGAGCTTCATCAGCCAAAGCAATTTGTCGAGCAACTTCCATTTTTTGCTTATTCTGCTGCTCAGCCTGCTCAGCTGCATCACGATGAACCTTAGCAGCATCAAGCAAATGTTTGCAGTACTCAATATGAGTTTCTATTTTTCTCTCATCAAAACCATGGGAATGGTATGTAGATGCAACAGACAATAGACTGAATACTCTAATAGCATTCTGAAGCTCAGAGACCGTCGCACGAACTTCATCAACTGTTCGTTTTGTCTTCTGTAGAGTTGAAGCTGAGAATTTCTGCATCGAAACACCTACATTGAATCGCAATAAATAATTTGATGGAGCCAAATGAATAGCTCTCAGCAATGTTTTCCTGCAGTCTTGCCATTGTTCAGCTTCATAGTGTGTCCGGGCAAGATATAGAAGTATAGTTGCATCTGTGTTGTAGAAGAACTTCCGCAGGCAGTTTTGGTACATTTTCACAGCTTGCTGAAAAAAACCTTGAGCAAAATATATATGAGCCAAATTTATCCAAACATCAGGCATCTGGACAAATATACTTCCTGAAGCAGCTTCATGTACCTGTGTAAATAACTCCTTGGCAATATCCCATTGGGCTTTCTCAGCATATAAGATCCCAATACCATTTGCAGCAAACATATTACCATGGTGCTGCTTTAGTACATTTGAATACAGTTCCTTGGCTTTCTCCCTATGAGTGGCCTCAAATTTTGGGGCCTTTTTCTCAGGGCGATTAGCAGCAAAGTAATTCCAGTTCCCCAATTGAAGCATAGAGTATGTGTCTTTTCCCTCAGAAGCATCTTTAGCTTCACGGAAATGCTCCTTTGCAGTAAGCCAGGTTTCATCACCTTGGAGTTCAAGACTTCCAAGCATAGAAAGTGCATTTGGATACTTATCATCTATCTTTAGAGCATCACCTATCAGCTCAATGCTCAGTTGGAGATTGTTTTTTTCTTTTGCAATAGCTGCTAACCTAAGATAAGTATCAATGTAGTCTGGATACTTGAAAATAATGAGGCGGTAAAAGAGACTGGCTTTCACAGTATCATGGAGCTCTTCAAACAATCTTGCATAGTTAAACAATGTAGTGACCTTATCCCAAGGTAATTCAAGAGGTGTTCCCTCTTCTTCAAGTTGTTGAAAAAAACTCTGGTCCCTATACTGAATACTCCAGTTAACCACGGAGCTACCTACACTGCCATCTATAATTGAAACCCAAAAGCCATCTCCAAGTGCTTCCTTAAAACTTTGTTCAGCCATCTCAAGCTCTCCCTTCTCAAAATGAAGTAGTCCAATTCCATTGAGCAATTCAATGGGTATTTTCTCTCCTGCCTTCTTTAGGAGATTCCGAGCTGTTTTTAAGTATTCCATAGCAGTAGCCCAATCAGATTGTACCAATAATTCACCTAGCTCCATAAATGCCTGATGATCTTTTGGATCAATCCGGGTAACCTTCTTGAAGGTTTCTATAGCTTTGTCATTCTCACCTGACTTTGCATATATGTGCCCAATAGCCTTTAAACTTTCACAATTTTCTGGGTGCACCTCCAACACTTTCTCAAAGCTAGCTAATGAACTTTTGTAGTCTGCAAATTTTAATTGTATCTGACCAAGTCCAAAGAATGGCAACACAAAGTCCTGTGGCTTACTGATTTCATTGACAGATGCCATATAATACCTTCCAGCAGTCTCAATATCACCCTTACTGTGGTACGATCTGGCTAAGTTATAGAAAGCATGTGATTTCAGCAGTCCATGATTACTTGAAGAGAGAGCAGTCTCCGTCAGTTGTTCAACCACAAAATGCTGGCCAGTAAAGAAATAATGGTTTGCTAGGTGGTTGAGTGCCAATGTGCAATAAGGATAAATTTCAAAAGCTCTTCTCATTTTCTCCATTCCTCTGCGAATTCCACCAGCTTCATTTGTTTGCAAGTCCATGATTGCCAGTGCTACTAAAGCATCAATATTTTCAGGGTCCAACTGCAGAACGCGTTGAAAAGCTTGTCGAGCTTTATCTGACTGACCAAGTTTGTATCGGCAAAATGCTATACCAAGCCTTACAGCAGCAGGACAGCTGGTATAGGCCCGCAGGGCTCTCTTATAGAGATCCAGTGAGTTCCTATAATAGTCCAGAGCTTTCTTGTGTTGCTGCTCTGAGTCACCCATCAGGAAATAAACAGAGGCCTGACCAAGTAAAGCTGGAAAATTGCTTCCATCTTCATCCAATACAATCTTGAATGAATCAGATGCCATTTGCAAATCGTGCTTGACCACACAGAGTTGACCTCTTCCGATCCATGTTGAAGGTTCAGTTTCATCTATCCTTGATGCCCTATTGTAGCATTGAGTTGCTTCTTTGAAATGGACTTCCTTCTGTTGTGCTCTCTCAACCTTCCCCAGGAAAGTATGGAAAGCGCCCAAAGCATTAAGGATAGCTATTCTCTCATATTTCACATCAGCATAATATTCATCAATTTCTGCAAGGGAGAAGAGACTATTCAACAAGAACAGGCGTTCAAGTAACAATGAGAATCTAAATTAGTGTAAGAAATAAAAGATGGTGTGGTTGACCAGTAGCCCTACAGTTAGAGAAATAGAAACTAAAAACAAACCTGGCCCTGATCCTTCCTCTAGAATCTGTCGGAACTGTTCTATCTTTCCTTGCTTGAAGTATTCTCTCGCGATGATGAGCCAGAGGTGGAGCGGGGCCTGCTCGGCCTTGAGGATGTCGAGGATGTCGGAGGCGTCGGCGGGGAGCTGGTCCAGCGCCACCCGCACCTCCTCCTCCGTCCCCTGCACCGGGATGTATACGCTAGCCATCTTCCCCGCAGCCTTACGAACCCCTGCCGCCGCCGCCGCCACAGGGGGGAGAAGCCCTACTCTGCGGCGGCTGGGCGCGCAGTAGTAGCACGGGGGACGGGGGTAAGACGGTGGAGGAGCGCCGCCACGGGTCCGATCTGTGCGGGGGCTTGGGGCGAAACGGGGCTCGTGGCGATGAGGGTACGAGGCGGGGGCGGAAGTGGCGGCGCTCGGCGACGGCGACGGCGCGAGGGGGAGGGGGAGGCGGAGGCGGAGGAGGCGCTCGGAGACGGCGACGCGACGGCGGCGGAGGAGGAGGCGACGCGGGTTTAGGTGGGGATTTATTTTTGAAGAAAATTTAAGT

Coding Potentia
Explanation CPC Score
noncoding -1.02317
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa07LNT0379700.1 7 17232406 C G
Osa07LNT0379700.1 7 17230798 G A
Osa07LNT0379700.1 7 17232051 A G
Osa07LNT0379700.1 7 17232374 T A
Osa07LNT0379700.1 7 17234435 C A
Osa07LNT0379700.1 7 17234586 G A
Osa07LNT0379700.1 7 17235796 A G
Osa07LNT0379700.1 7 17236823 A C
Osa07LNT0379700.1 7 17237604 A G
Osa07LNT0379700.1 7 17238087 G A
Osa07LNT0379700.1 7 17238564 G A
Osa07LNT0379700.1 7 17240078 T C
Osa07LNT0379700.1 7 17240207 C G
Osa07LNT0379700.1 7 17240336 A G
Osa07LNT0379700.1 7 17242814 A G
Osa07LNT0379700.1 7 17242902 G A
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
Osa07LNT0379700.1 DTM_#DNAt_MULE_japo_Os1148 Chr7 - 17245271 17246894 2
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa07LNT0379700.1 osa-miR5837.1 Translation 5.0 16.65 1 21
Osa07LNT0379700.1 osa-miR6255 Cleavage 5.0 15.659 1 22
Osa07LNT0379700.1 osa-miR418 Translation 4.0 13.524 1 21
Osa07LNT0379700.1 osa-miR426 Cleavage 3.0 11.95 1 21
Osa07LNT0379700.1 osa-miR530-3p Cleavage 4.0 20.218 1 21
Osa07LNT0379700.1 osa-miR810b.2 Translation 4.5 8.351 1 21
Osa07LNT0379700.1 osa-miR1436 Translation 3.5 3.274 1 21
Osa07LNT0379700.1 osa-miR1851 Cleavage 4.5 15.887 1 21
Osa07LNT0379700.1 osa-miR1855 Cleavage 5.0 18.308 1 21
Osa07LNT0379700.1 osa-miR1858a Translation 4.0 0.632 1 21
Osa07LNT0379700.1 osa-miR1858a Translation 5.0 11.894 1 21
Osa07LNT0379700.1 osa-miR1858b Translation 4.0 0.632 1 21
Osa07LNT0379700.1 osa-miR1858b Translation 5.0 11.894 1 21
Osa07LNT0379700.1 osa-miR2099-3p Cleavage 4.5 17.741 1 20
Osa07LNT0379700.1 osa-miR2879 Cleavage 3.0 13.091 1 24
Osa07LNT0379700.1 osa-miR2919 Cleavage 3.0 1.554 1 19
Osa07LNT0379700.1 osa-miR2919 Cleavage 5.0 6.337 1 19
Osa07LNT0379700.1 osa-miR2919 Translation 4.5 2.087 1 19
Osa07LNT0379700.1 osa-miR5816 Cleavage 5.0 13.864 1 24
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa07LNT0379700.1 7 nan Resistance or Tolerance Insect resistance RG773 CDO59
Osa07LNT0379700.1 7 qHd-7 Physiological trait Flowering RM125 RM432
Osa07LNT0379700.1 7 nan Physiological trait Flowering R2401 R1440
Osa07LNT0379700.1 7 gw7 Morphological trait Panicle/flower R1440 RG128
Osa07LNT0379700.1 7 gp7a Morphological trait Panicle/flower R1440 RG128
Osa07LNT0379700.1 7 dth7.1 Physiological trait Flowering RM125 RM336
Osa07LNT0379700.1 7 yd7a Morphological trait Panicle/flower R1440 RG128
Osa07LNT0379700.1 7 tp7b Morphological trait Culm/leaf R1440 RG128
Osa07LNT0379700.1 7 nan Resistance or Tolerance Other disease resistance C1226 R1440
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