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

>Osa10LNT0067100.1

GAAAAGGCTGCTGGTTTTTTGGCATATAATAACAGTTAGATTAACAAGAATGTTTTCTGAACATGAAGGGGCTTGTACAAGATGTTACATTTTATGTATATGACACACACACAACTCTACAACTGATATTCCACATGCTGAGATTCTACTGATATTTACATTACAAAAAAAGTAATTCCCGTGCTGTCGCGGAATAAGTCCGTTTTACGAACTCCGCGAGATCTTGATTTTTCTGTTCATTTTTTCCTCTATGTTTTTGCTATGATCTCATGGGTGATCGGTTCTTCAGGTTCATCTCAAGCTTCTGCCTTTCTCCCTCAACTTCAGCAAACTGCACACTGAGCTCTGAGTACCTGCCCTGCATGTCTTTCAGCTCACTTTCTACTGCCACTTGCCTTCTCTTCAGCTCAATCGTATCCTGTATCAGTTCATTGATGTCCCTGAAGCTCTGGAATACTGCTGCTTCATCATTATGTTGCTTCAGGAATGAACTCTGGAAAAGGATGTCTGTTTTCTTCTTTGCTTGGAGTGCTTCTGCTAGTTCGAGTTCCAAAGCAAGTACTCTTTCCAAGGCATTGCCAGAACCAGGAAGCTCTTTAAATGAAGGAAAAATGCTCCTTAAATGTTCATTTGCCATATCAAGCTGTGATAATGCCCTCTCCAAACCACTGAGTGATGGGTCAATTAGATTGATGTCCAGGGGAAGAAGAGGAGAAAGATTCTCATTTTTCAGTCTCTCCAACTCCTGATGGAAATGATTCAAGTCAACTGCTAATTTCCTATGCTCCATTGAAATATCCTCAATGGAAGTTTTACCAGTCGAATGATTCTCTAAAGATGGCTCACACTCCTCTAAGTTCTTGGATGGCACAGATCTGGCATGTTCACCCTGCTCACTAAACCTTCTAACATCCTCCCCTGCTGCCAAAGTTGATGAAGCATTCGTGCTTTGGATTCTATCTTCATCTTGCTGTAATCCAGAATCAACTTCTGGTGTATTTTTTGTTGTCTTTGATGAAGCGGACCCAGGCTTGGCATCTCCAAGAATTTGTCCAATGGATGTAGCTCCAGAGGTGCATGATCCAGAATTATCAGGCACAGTGGGATTGTCAGTTAATGCCATGTTCTCTAACAATTTTTTAACCAGGTCAAGCTCCACCCTTATTCTATTGCGTTCCTCAGTGCACTCCTGAAGAGTGTCCTCAATCTTCTGTTTTTCTTCCATGCAGCAATCAAAGTTTAGTTTTGTGCATTCCAGTTCTGTTACTATGCTGTCATATGCATTAGACAGGTCTCTTTTATCAACTGATGCATCCTGCATCTCTAACTCCATTTCAGAAATTCTCATTGATAGCTCTTCAATTCTTTTAGCAAGAGCAATCTCATTTTTCCGCCCAGTTTCAACCTCATCCAAAGCACTTTGTAGCTTCAGTAACATCTCTTCAGCATACTTTTTGGAAACAAACACCTGACCTTTCAGTTCTTGAACCTTTGTTTCGTACTGCTCTTTAATGAATGCAATTCTGAGGGATTCTTGCATGGCAAACAATGATCCCTCTTTCTCCTTCCTTCCAGCTTCAGCCTTCTCTTTTAGCTCTCTCAAATGGATAGACAAATTCTTGAACTCTTCTGCCTTCAGAGTTTGTTCAGCAAGTTTTTGAGTAAGATCCTTGTTCTGTTCTTTAAAATTGGCCAACTCGTGTCCAGAGTTCTGGAGCAATGACAATATTTCAGTACGTTGTTCCTCCAATTTTGATTTTAGAACCATGTTTAGAATTTCAACCTCATCTTTTGTAGACCTCAAATCATCAACTTGCTCTTCAAGATTTGTCAGTAAGACTTTAAGCTGCAAAATGTCATCTTGATACTTCAAAACTCTCTCACTGCTATCAATTGATTCTACTATATCTCGAGACTTGTCGGTACCAACTTGAACAAATTGTTCTTCGTTACTTTTTATAAGCTCCTCAAGTTCTTCCTTCTCTTCATTGACCCTAGCAAGGTCAATTTCTAAAGAATGGATAGCTGCTTCGAGTGCAGCAACTCTATCAGCTAATTCTGCTTCAGTTGACATGTGTACCCTTAGTAAATCATCAGCATCTTTGTTCTTAAGCTGGAGTTTTTCATGGTCATTTCTCAAGGAATCAAGTTGCCCAGTAAGCTCCTCAACCAGATTTCTCATATAACTAGCTTCAGTTTCAGTGGCGACTGTATCCTTCATAACTGTTGCTAACCGGTCTTCAACATTGGAAAGCTGGGACTGGAGTGAGATATTTTTACAATTGAGATCCATCTGGATTTGTTCACTTTGTGAAAGAGCATCTTGCATCAAACTGTTTGCCCTTTCCATGTCCAAAACTTGGTCCCTCAGACGATTTAACTCCGTTTTGTGCTCATCAAAGGAAAGCAGGGCCTGATCCTTGTGACCAAGTTGTGACGTCAGACTTGCGAGGGTAGACTGAAGCTCTTCCATCAGCCTTTTTTCTCTTAGCAAATTATCATCACTAGATCGCAGTTCATCTTGCAAGCTTCTGATTTCATTTTCCATTTGCATCATTGCTTCATCTTTAGATTGTAATGACAGGGTAAGAGTTTTGTTCTCCTCCTCAGATTCTGCAAGAGTTACTTTGGTCCTCTCATGTTCCTCAACAATAGCAGCAATATCCTTCAACTTCTCAACAAGAGCTTCATTCTCACTGGTAATGTGCTGCAGTTGACCTTCCATTTCTGCAAGCCTTGATGTTAAGTCAGCATTGATAATGGAATACTTTTCTTGAGCCTCTGAGCTAATCTTAAACTTGTGTGTCATGTCCTGTAATTCTTTCTCAAGCTTTTCCATATGTTCCTCAGAGAAGTTCAGCTTTTCTTTCATCGCATCGAAATCAAGTTGATACTTCTGCTTCATATCAAGCAACTCTAGTTCAGACTTGTCCTGTCTACTTCGGAGAGCCTCGCACATTTCTTCGGCTGCCTCCTTCTCCTGACGAAGTCGAACCACCTCCTGGCATGATTGCTTCTGGAAGAATTCCAAGCTTGCCATGACAGCAATGTAATTCCTTCTTTGAAGTTCATGTAGCAGAGATGCCTCATCTAAGCCAGAAATGCCAATGTCCTTGCTGGAAGAAATAATCCCATTGCACACATTGTTCATTTGCTCTTGAAGCAATGCAGAGACAGTTTGCATATCAGTGTTTAATGTGGACTGTTTATGTAATTCATCTTTCATGGCCTCAAAATTTTCCACAACTGATCTGAGCTCATCCTTAAGATGACTGGTTTGCAGACTTTCTTTCATCAAAAGGTCCTCAAATCTCTTCCTATCTTCAGTGCAGGCCTTGTACTTGCTTTCACAAGATTCATGTTCCTGAACATATCGTTCAGATTCTGTGAGCTTTTCCATTAATAAAGCGTTTTCAGCTGACATATCTTGGAGTTTTGCTTCTAAGATTTTGTTCTTTACCATAAAATCATCGCATTTCAAAATGTATTCTGCTTCAGTTTCTTTCACACTTTTGGCTTGATCCAATGCAGCGTTCAACTTCAGCACTAGAGAATCCCTAGCATCATTAGAGTCACGAAGCTGTATTTCCAGCATGTGCAGTCTTTCCTGCATTAGCTTGATTGTACCCAATGCGGTACAGTGAGCCTCACGTAGCACATCAGAGAATACTTGCCACTCTATGTTGGCCATATATGTTTCTAAAACCTCAGATTCCGTTGTTGAAGGGGTTTGTTCTAGCTTGTCAAGTTTGGAGTAGTCAACCTGTAGATTAGTATTACTTCGAACTTGAAATTCAGATCTATTACGGATCTCTTCCATTTTAAGGGCCCGAAGAAGACTTTTCTGGCCATCCATTTTGTAAGTGAGATTATCTGGTCTGCCATTTTCTGCTGAAAATGCTTGGGATTCATGATCAGACATGTACAGTCTGCGTTCCTTGTTAGCACCTAAATCTGCTACTGCAGACTGTTCTTCAGGGGAACTCTCAAAATCTTCTACAATGGATTGCTTCGCAAGAGTTTCATTTGATTCATACATAGAGAGAACCTGAAAGGACAGTAACTCAAGATCTTTCTGTAGACGCTCCACAGCAGCAGAATAATTCCATCGAACCCTCTTTAATGCAGTTTCTGTAGCAACAGCCCTCCTCTCAAACTCCTTATTTTGAGCTTCTAATGTTGTTCTGTCCTCAACAAACCTCATTAATTGATCATTCATTTCCTCATGCATTTTCTGTTTCTGGGCTTGGAGAACAGAAACAGTATAGAAACAAGAATTATGTTCTTTCCTGAGGTTTTCCAATTCAATTTCTGTCTGCTTCTGGCGCTCCTCAAGCTTGTGAATAAAAGATTCATAGTAACGCTCCATCTGGCTCATCTTCTCCAACAGATTCTCCTTCTCAGTTTTTGAGTCCTCCAACTTCTGCAAGAGCTCACACATTTTCTCCTCCATTGTGCCTGCACTGCCAGAGGTTTTCTTGTTGGAATCATGATCACGCCCTAAACTTGGTTGATGAGCAGCATTTGTGGGTGGAACCAAGTGTTCTAGATAGTTATTTTCTTTCATCTGTCCATTCTGCACACCTTGCTTGAGGTTCTCAATGACACGCTGAAGAGCCCCCAGATCAGCAAGAAGGAAATCAAGATCGGCGGCTTGGAGTCCATGTAGAGCATTATTTCTGGTCTGCTGCAGTTTACTTTCAAGAAGCAGCAATCCTTGCAACCATTCGGTTTGAAGATCATGAACTGAAGTATCTGCAAGAATATCATTTCCAAACTTACTTGATATATTCCCTTGGCCTGCGGCCATCATGATATCTTCTCCATTTGCCTTTTGCTGCAAGAGTTTAGCAGATTTCATTTCTTGCAGCTCTCTTTTCAGATTGGAACACTCTGTCCTTAGCGAGGATACTTCGGCACTGAGCTGGTTCCGTGACATAAGCTCAACACCAAGCTGTTGAGCAAGACCTTGTGTTTCAGTACCTAACTTGTCGGTAAAATCCTGCAGAGATGTTGCTTCCGACTTGAGATGAGAAAAAGCTGACTCAGCCACCTCCAATCTGGTCCTGAGTTGATTATTCTCCTCATGAGCAGCAGCTAGATCATGGCCAGTGGAAAGCTCAGGACTCCATCCATAAGTCCACTCATTGCTCCCTTGTGGTGAAAGGTGCTTACTCCGAAGTGACCCCTTTTCTGGGGTAGGACTTTGACTTGAAAGTGATAGATCACCTGACATTGTTGCCCTAAAGCTACTGACTTCATGACCACCATATGAATCAATTTTTTCAGCAAAAAGGCCATCAGAATTGTGTGATGAGTTTTCATAGTCTTCAGTTGACCCAGCAGAATCTTCCGCCAAAGGGAAACCCGAAGAAGTTTCTTTCAGCTTGATTCTTGCATTGGCCTTATGACTATAAATGTCTGATGAAGCCACACCAATTTCGGAAGGATCATGACTTCTTTGGTTCACTAACTGTTGAGTACTTTTGGCACCAGTTTCTCTTTGCTGCTCAAATTCCCTGAAGCCAGTTTTAGTTGTAAGGAGTTGTGCTGTGACATGTAATATTGTCCCAAATTCACAACCACGAAGAGGAAGTGCTATTGAGACAGGCTTCAGTGCTTCTGCAAATTCGGCAAGATTCACGTCAAGCTCTCCAAGAATACTAGATCGAGAAGTACCCATGGCCACGACAATCTTATAGAGTTTGTCATCATATGTCTTGGTCCTAGAATCCTGAAGAAGCCGTGTTGCTTCATATATAGGGTCTGGCCATTTGCAACTTCCATTCCTCACATTTGCTTTATTTGTCTTTGCAGATACCTTTCCCGTATCAGCAGAAATGAAGGACAAAAATAGCTTGTCCCACCCTGTTGATGGAATATTTGTAGCGTGGAATTGTAGCCGGAAGACTACCTTGACTTTCGCTTTTTCGATCTTCCATTTAGGTACCCTTGACATTGTGCCAGTATCAAGGCAATTCCCAGAAAGGGGAAACTTTATAATTTAAACATATCTCAGTTCTAGAAGGGTCAGATTTCTTTTCCCTCTCGCTCCACTGACGCCGACGCCGAACTCGCCGGAGAGTGGCCCCCCGCTCCCTCTCCTCCGCGTCCACGCCGCCGCCGCCGCCGCAGCGGCAGCGGACAAGAAGACGTACGGCGGCCGCGGTCGCCCCACGCGTCGCGACGCCGCACCCGTGACTCCGGCGAGGAAGAGAGAGTGGTGGTGGGCTACTGGAGCGGGTGATCTAGCTGCAGCTGCTTGCTGCTGCTGCTGTAGTAGTTGCTAGTGAGAGAGAGAAGAGAAAGATGTAGAGAGAGAAAGAGTGAGGAGAGAGAGAGAGGTGAGGTGAG

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.473578
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa10LNT0067100.1 10 11310024 A G
Osa10LNT0067100.1 10 11310780 C T
Osa10LNT0067100.1 10 11306276 T A
Osa10LNT0067100.1 10 11306588 T C
Osa10LNT0067100.1 10 11307138 T A
Osa10LNT0067100.1 10 11307385 A G
Osa10LNT0067100.1 10 11308600 A C
Osa10LNT0067100.1 10 11310246 T C
Osa10LNT0067100.1 10 11310517 T C
Osa10LNT0067100.1 10 11312149 A T
Osa10LNT0067100.1 10 11312317 C T
Osa10LNT0067100.1 10 11312982 C T
Osa10LNT0067100.1 10 11313334 G A
Osa10LNT0067100.1 10 11313440 A C
Osa10LNT0067100.1 10 11314830 A C
Osa10LNT0067100.1 10 11315813 G A
Osa10LNT0067100.1 10 11316215 C T
Osa10LNT0067100.1 10 11316292 C T
Osa10LNT0067100.1 10 11316533 A G
Osa10LNT0067100.1 10 11316607 T C
Osa10LNT0067100.1 10 11317360 C T
Osa10LNT0067100.1 10 11317850 G A
Osa10LNT0067100.1 10 11311655 A G
Osa10LNT0067100.1 10 11305352 A T
Osa10LNT0067100.1 10 11314192 G T
Osa10LNT0067100.1 10 11314422 G A
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
Osa10LNT0067100.1 DTM_#DNAt_MULE_japo_Os2088 Chr10 - 11313926 11314815 889
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa10LNT0067100.1 osa-miR5533 Cleavage 5.0 21.746 1 21
Osa10LNT0067100.1 osa-miR5542 Cleavage 4.0 18.439 1 21
Osa10LNT0067100.1 osa-miR5542 Translation 4.0 18.514 1 21
Osa10LNT0067100.1 osa-miR5542 Translation 5.0 7.443 1 21
Osa10LNT0067100.1 osa-miR5791 Cleavage 5.0 16.146 1 21
Osa10LNT0067100.1 osa-miR5804 Cleavage 5.0 15.341 1 21
Osa10LNT0067100.1 osa-miR5817 Translation 5.0 20.022 1 24
Osa10LNT0067100.1 osa-miR5818 Translation 5.0 15.348 1 21
Osa10LNT0067100.1 osa-miR5818 Translation 5.0 20.054 1 21
Osa10LNT0067100.1 osa-miR156a Cleavage 4.5 10.45 1 20
Osa10LNT0067100.1 osa-miR156b-5p Cleavage 4.5 10.45 1 20
Osa10LNT0067100.1 osa-miR156c-5p Cleavage 4.5 10.45 1 20
Osa10LNT0067100.1 osa-miR156c-3p Cleavage 2.5 2.713 1 22
Osa10LNT0067100.1 osa-miR156d Cleavage 4.5 10.45 1 20
Osa10LNT0067100.1 osa-miR156e Cleavage 4.5 10.45 1 20
Osa10LNT0067100.1 osa-miR156f-5p Cleavage 4.5 10.45 1 20
Osa10LNT0067100.1 osa-miR156f-3p Cleavage 3.0 2.713 1 22
Osa10LNT0067100.1 osa-miR156g-5p Cleavage 4.5 10.45 1 20
Osa10LNT0067100.1 osa-miR156g-3p Cleavage 2.5 2.713 1 22
Osa10LNT0067100.1 osa-miR156h-5p Cleavage 4.5 10.45 1 20
Osa10LNT0067100.1 osa-miR156h-3p Cleavage 3.0 2.713 1 22
Osa10LNT0067100.1 osa-miR156i Cleavage 4.5 10.45 1 20
Osa10LNT0067100.1 osa-miR156j-5p Cleavage 4.5 10.45 1 20
Osa10LNT0067100.1 osa-miR166d-5p Translation 5.0 19.424 1 21
Osa10LNT0067100.1 osa-miR395f Cleavage 4.0 16.326 1 21
Osa10LNT0067100.1 osa-miR395f Cleavage 5.0 11.993 1 21
Osa10LNT0067100.1 osa-miR156l-3p Cleavage 3.0 2.713 1 22
Osa10LNT0067100.1 osa-miR159a.1 Cleavage 5.0 21.409 1 21
Osa10LNT0067100.1 osa-miR159b Cleavage 5.0 21.409 1 21
Osa10LNT0067100.1 osa-miR166i-5p Cleavage 4.0 17.943 1 21
Osa10LNT0067100.1 osa-miR418 Cleavage 5.0 19.871 1 21
Osa10LNT0067100.1 osa-miR810b.1 Cleavage 5.0 20.012 1 21
Osa10LNT0067100.1 osa-miR1850.1 Cleavage 5.0 13.36 1 21
Osa10LNT0067100.1 osa-miR1864 Cleavage 5.0 18.54 1 24
Osa10LNT0067100.1 osa-miR1873 Cleavage 4.5 14.556 1 24
Osa10LNT0067100.1 osa-miR1320-3p Translation 5.0 18.517 1 21
Osa10LNT0067100.1 osa-miR2092-3p Cleavage 5.0 18.29 1 22
Osa10LNT0067100.1 osa-miR2094-3p Translation 3.5 16.036 1 22
Osa10LNT0067100.1 osa-miR2120 Translation 4.0 16.342 1 24
Osa10LNT0067100.1 osa-miR1863c Translation 4.5 19.054 1 24
Osa10LNT0067100.1 osa-miR2879 Translation 5.0 10.827 1 24
Osa10LNT0067100.1 osa-miR2879 Cleavage 5.0 10.752 1 24
Osa10LNT0067100.1 osa-miR1863b.2 Translation 2.0 16.812 1 23
Osa10LNT0067100.1 osa-miR2928 Cleavage 4.5 21.986 1 20
Osa10LNT0067100.1 osa-miR3982-5p Translation 5.0 21.87 1 21
Osa10LNT0067100.1 osa-miR2863c Cleavage 5.0 11.245 1 24
Osa10LNT0067100.1 osa-miR5338 Translation 4.0 21.069 1 21
Osa10LNT0067100.1 osa-miR5491 Cleavage 4.0 21.069 1 21
Osa10LNT0067100.1 osa-miR5503 Cleavage 4.5 19.093 1 22
Osa10LNT0067100.1 osa-miR2275c Cleavage 4.5 20.667 1 23
Osa10LNT0067100.1 osa-miR5519 Cleavage 4.5 23.704 1 21
Osa10LNT0067100.1 osa-miR5519 Translation 5.0 14.297 1 21
Osa10LNT0067100.1 osa-miR6255 Cleavage 5.0 11.825 1 22
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa10LNT0067100.1 10 nan Physiological trait Sterility R2309 RG257
Osa10LNT0067100.1 10 nan Physiological trait Sterility C701 C16
Osa10LNT0067100.1 10 qSPB2-1 Morphological trait Panicle/flower C1633 RM239
Osa10LNT0067100.1 10 qSPBp10-2 Morphological trait Panicle/flower C1633 RM239
Osa10LNT0067100.1 10 nan Resistance or Tolerance Other stress resistance R1933 R1629
Osa10LNT0067100.1 10 nan Resistance or Tolerance Other stress resistance R1933 R1629
Osa10LNT0067100.1 10 trdw10.1 Resistance or Tolerance Drought tolerance RG257 R1261
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