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

>Osa02LNT0163300.1

GGGTGATATATGCATCCTCTATCTCTGCTCTGATTTTATATTTGCAGACCAGACCAGTACAACAAGATGATAACAAATAAAATTCGGCAACGAAAGCATCTCAAATTTCTACAGGAATTTAGAGAGATAAAGAAACAAATGTTTCACAAAATTTTGAAGGCAATCACCATAATGATACATATAAATACCCCAGATCAAAACGTCTGCTGTTATGATCACCTCTCCAGCAAATCAAGCTGGCTCCCCTACCTCAACAGCTGTTTGAATTGTTCCTAGAATCTCTGATCGCAATTGCATCAGCAATCTACCCAAGTAATTCATACCTTCGCCCTCGCGCCCACCGCCCCAAAATAAATCGTGGGGCGACGCCTCAACAAGAACAGAGCCAGCCGTTGACAACAGCATGTCAGTCAGATGGGAATAAGTTGAGAACTTGCGCTTTGTAGCTCTGTACATCACTTCAATTTTGATGGAATCCCAATCTGGTCGTACCAATTCTTGAAATTCTCTTTGCCGAGTGCGTCCTATTCTAGCAGCTTCTTCAGGACTCTTAGCCAGCTTTATTTCTTGGACAATCTCTCTTGCTTGAGGATCATCAACACCAATAAACTTGTGTGCCTGGTAATAGTGCTCCACTGTTGGCCATGTGAAATAGTCTCCATTTTCATCGGGCATGTGAATTGGATGGGGAGAAAAGTTAGAGAAGGCACCAAAGGTATCCCAAGTCTTGTAGAAGGATATAATATTAGTTTCATATGGAGATACTTCTGGATCAACTGAAGGCATTTCATCCACAGATGGTATTACAGGTGAGAGATCAGGAATAGGTTGGATGAATCCACTCATGAGCATGTCCCTATCAATCTGCTCGTAAGAAACATCAATTAAATCAATCGCTTGAGTCATTTGATTCATCCCTAGTTCACCGACTGGTGTTGGAGCATTCACTCCCCCAATTATTTTTGGAGCCAAGAATGCATACACCTTATGAATAACACTTGCAGATATAGCAGAAGCTGCTAGGGTCCCACCACACTCCCATAATACGGAGAGGTAACCACGATCATAACAATATGACATAACATCTCTAGGATTCAGCATGTCAAACTCCACTACTTCAACACCCTTCAAAGCAAGTTTCTTTTGGAGATCTCTCCGAGCACCTCTTTGTGTTGCAACTATTGTGTATGCATCATGTACATTCCATAAATTTGCTTCCTCGGGAAGATTAAGAGACTGTGACATTACAATTCGCACTGGAACATGCCCCTTGACATGCCTGGCAGTTAAGCGAGGATCATCAAGGCGTACTGTATTTCCACCTACAATTATAGCATCGCTTCTTCCACGCAATTCAAATACTCTGCCTCTAGATGATTTGCCACTTACCCAAGATGCATGCCCACTGCTTGCTGCAATTTTTCCATCTGCAGTCATAGCATACTTCAGGACAGAGAACGGAACACGGAAGGCAGCTCGGTAAAGTAATGGGGCATTTACAATGAGGCATGACTTAAGAGCTTCCTACAGTGAAAACTAAAAACATTAGCAAGGCTATGAAAGAGCTTCCTACAGTGAAAACTAAAGACATTATCAAGGTCATAAAATGAAAGAACAGATCGATAATATTCATAGTATAACTACCACAATCACAACGACATAATCAAATATACCAATACAGTATAACTACCACGAGAGCATATAAATATACCGATACAGTATACCACGAGGCAACGACATGTTCATATTCTAGATGAAAACACAGCTTCCTACATTAAACACAAACTGAAACTAATTAAGGTAAATACCAAGGTGAACACTAGCCGAATAGCATCCACTTAAAAAGTAGGTACATCAAATGTCAGTCATAAAAAGATTATTGCACATGGTGGAGGGGTTTAACCATCAAAATAGTAACAGCAGAAGCTCAACTGAACCTCAATAAATGAAAATATCAAATAATGATATATTCTATGATACTAAATTAGATACTAATACAAATTAACCAAAAATGACATAACATCAAGTGAGAGCTCAAGTGCTCCATATTGACTTGTAGCAATAAATTTACTAAACTAAAACAACATTCACATGATGGTACAGTGTACATAATAAATAGAACCTTCAAACTGAATACAAATTATAGTTACCTGGCGAAATATTATTTATTGTTGTGCATTATTATCATTCTTACCTTTTTTTGGCAATATATCCCAATGGATAATGATTTTTTTTATTGTAGAAAATTTTCTAAACATGTTATGACATACCCCTAGTAGCTTAAGATGTTGAGTAGATGAAAAATTACTGAATAGTGACAGCTTTAATCTTTAACAACTACTACTACTACTAATTAGAATATTGCAACTAATCAAAACAAAGAAAAGTATAATCCAGGAGAAAACCTTAAATAATTTACTGTGCAGATCCTCGCCCACAACGTCAACTTGAATGCCTTCATTTCGTAGTGATTGAATTGCCTTTCCTCTCAGGTGCTTTAAGGGGTGCCTAAGACCAACCACAACCCTTGTAATTCCCTTGGAGTTCGCACGAACAGCGATCGGTCAGCACGGCGCAGGAAATTTGCATCACGATGTAGGAATTTGAACAATATTTTCATTATATTTTGTGAATTGTGAGATGTGCGTGCAAAAGAAGGGAGCGACAGCGAAGGGCCAAGGATTAGCACCTGGACTAGGGTGGAAACGGCAGTGCTGTCCCCGTAGCAGTCCCCGGGCTCGAGGTTGAGGTAGGCCGTGGCGCCGCGGGCGTGCTCGCCGGCCTCCTGGGCGGCGAGGAGCTCGGCGCAGGGCGTGCCCTGCGCGTAGAGGAACCCCTCGCCCACCACCCATGCCTCGGCGTTGTCGGTCTCGAGCTGGGGCCTGGCGATGACGCACCCGAAGTTGGGGTGCGGGGAGGTGAGCCCCGCGGAGCGGTCGGCCGCGTCGGCGGCGCGGCGAAGGAGGACGGCGTCGTGGGCGTGGGAGGCGGCGCGCGGGGCGGGGAGGGAGAGGCGGCGGAGGCGGAGGTGGAGGCTCCGGCTCAGGCTCCGGCGGGGGAGGAGGAAGAGGGGGCAGGTCGCCGCCGCGGCGGGCGCGACCCCGCACGGAGGCGGATGCGCCGGAGGCATGTGGTGTCTCGCCGGCGCGGCGAAGGCTCCCCCGAGTTTGGGGTAGG

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.777865
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa02LNT0163300.1 2 16107378 A G
Osa02LNT0163300.1 2 16105611 A G
Osa02LNT0163300.1 2 16104878 G T
Osa02LNT0163300.1 2 16105670 T C
Osa02LNT0163300.1 2 16106316 T C
Osa02LNT0163300.1 2 16106590 A C
Osa02LNT0163300.1 2 16106833 T C
Osa02LNT0163300.1 2 16107592 A G
Osa02LNT0163300.1 2 16108043 T C
Osa02LNT0163300.1 2 16109022 G A
Osa02LNT0163300.1 2 16109100 C A
Osa02LNT0163300.1 2 16109434 A C
Osa02LNT0163300.1 2 16110158 A G
Osa02LNT0163300.1 2 16104701 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
Osa02LNT0163300.1 osa-miR395f Translation 4.5 11.548 1 21
Osa02LNT0163300.1 osa-miR159a.1 Translation 5.0 13.654 1 21
Osa02LNT0163300.1 osa-miR159a.1 Translation 5.0 13.423 1 21
Osa02LNT0163300.1 osa-miR159b Translation 5.0 13.654 1 21
Osa02LNT0163300.1 osa-miR159b Translation 5.0 13.423 1 21
Osa02LNT0163300.1 osa-miR395w Cleavage 5.0 9.373 1 22
Osa02LNT0163300.1 osa-miR1428e-5p Translation 5.0 16.235 1 22
Osa02LNT0163300.1 osa-miR1428f-5p Translation 5.0 16.235 1 22
Osa02LNT0163300.1 osa-miR1428g-5p Translation 5.0 16.235 1 22
Osa02LNT0163300.1 osa-miR2118d Translation 5.0 17.529 1 22
Osa02LNT0163300.1 osa-miR2864.1 Translation 4.5 14.618 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa02LNT0163300.1 2 d50 Morphological trait Dwarf nan nan
Osa02LNT0163300.1 2 qPH-2 Morphological trait Dwarf RG324 RG83
Osa02LNT0163300.1 2 np2.2 Morphological trait Culm/leaf RM324 RM262
Osa02LNT0163300.1 2 qSS-2 Physiological trait Sterility RM301 RM263
Osa02LNT0163300.1 2 nan Resistance or Tolerance Drought tolerance RG83 RG171
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