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

>Osa02LNT0162000.2

CACATGCAAGATTAGATCGATATAATCAACTTTATCCAATTTTAATTGCTCCATCACTAGCTAGCCATTGTTTACACGTTCCCTCCAATAAATCGCCATCGACTTCACTGCTGCCACTTCCGTCGCCACCGACTCAGCTGCCGTTGCCACCGCCGTCGTCGCCACAACTGTCATCTTTGGTGCCGCCACTGAAAATTTTTCATATAGAAATCTTCATCACGAAACAATGAGATCTTTTCACATAGCACTTGGAAAGTGCCAGTGACTACTGAGCTATGTCCAATAGGCCAACATTATGTCCAAGAGTTCGGTTTTACATGCATGAAGTGGAAACAAAATGTTGCAATTTCGATTGATTAAGCGCAAAAATAACTAATGAAATCATAATGTCAAGTCAACCTATGATGCAAACTTCATAGAAGTATATGTAAAAACAGAGATTCAATTTGAAAGATGATGGGTCAGTAGCAAATTCCAGAAATATCGCTGTAAGGAAAAAAAAGAAAGAAAGACCCCATGTGCACCTATTGAAGCATATTTTTTTTATATCCATCATTTAGAGACTTATTTAGTATATCTGACAATTGTAGTTGCTATGATTAATCGAATTTACGGAGACTACCTAGATGAGATGGCCAAGAGACTTTTAGCATGATATGATATACTTACCTTAATCGTGGCCAAAAGACTTGAAACATGATATGATATAGTTGCTCTGAGGTATGGAGGTATGGCTATTTAAAGTTATTTGCATGATCCAAATATAGGGGTAAAAGGTGGGGGGGGGGGGGGGGGCAGCAAATCAGCAGAAAAATTATCATAGATGGGAAACATACCAGATGGAGCATGTGGTTGCTGATTTACATTCCATGCCAAGGAATAAAAGGGAACATATAATTTATAAGTTTGTATTGTCCACTTGCTATTTAAATTCAGAATATGTAGATTATTTTAAAGTAATGATATTATCTGAATATCCTTTTTCCAGAATATGCAGACACATTTCAGGTTTATAAGCTTGAAAAAAAAGGCACTAACGAACATTCCATCGTTGGTCAAAGAATCCCATCATAGATCAACTGGCCTAAAAAAGAAGAAAAATAAGTGTTTCATGCATAGAAAGTGGTTTCAATTTTATATCCATCTGTTGGATATTAAGACAAAACTTGAAGGAGAATAACTATTCCACATTGGTTCCAGATAATTAATTACATCCTTTTCATGAGAAAGCAACAATTAACAATTACTTTTGTTCCCCATAACACATTGGGCCAGCTGTACTTCCCAACTATCATGAACAATTTGTTTAAACAAAAATTAGCAATAAAGCACATGGGACATTATTCAAATACCAGTATGTCCACTATCATTGTCAGTAAGTTCCAAACACTGTCAATGGATTGTAGTTCCTACACTATAAGAACTACCTCATCCAATATCCTACTATCCCCAACTGGTTGTCAATAACTGTAAGCCTACCTGACCATTTGAAATAAAATATTTGATAGTTTTGGAACACAGGTAGCTGCTTAAATAGTATATAGTCTTCAATATGAAATGTCACATTTTAGCAATATGACTATGCATGTAGCATGTTAAGCATATTTCTCTTATCAATAACTATTTCAATTCTAAACAAAAACTACAACATGAGTATATGTTTTTCTTTATTGCCTAAATTCACACACCTCAGATGAGATACCATACTTCCCAAAAATGCATTAGTGCTCGTACAGAGAGAACCTAGCTAGTATTTCTTAGTATACCTCTAGCTAAGAAGAGGAACCAAATTAGGCGACAAAGACTAATGCACCTCGTGCAAGCTGGTGTATAATAAAAAAAAGTCCCATGGCTACAGCATAGGACAATCTTTGTTAAAATTCCAGTTCTAAATAGGTTACAATGACTTCGTATGATGTTCAAAAAAAGTAATTGATTCGTATTGAGGCAAAACAAAACTTACATAGATATGTTCCACTTCATATGCACTGGGAGGGATACCTGCATCTAGAGAAGCTTATAAGCACTGATAAATAAAGAACAGTAGGGCATTTAGGGCATTTATAGTATGGTCTGAAAGGCTTTGAGTTGGATCTGCACTATTATGTTTCTTGTGTACATAATATGAACTGAATCAGCCCAAGAAGAACTTTACCTTGGCAACCAAAGAGAATCATTACATACATGTCAAAGGTATCCTAAGCTTGATATAATGAACGAAAGCCCCAAATCGCATAAATATGCCCTGCATCACAAATGGGAACAAATAAACCTATCAACAATATCGTTTTGCCCTCCAAAGTTGTATATGCAATTCCTAACTGAAACAATTAATCACAGCATAGAGAATTTTGAGTAGCAGCGTGTGTTGTTTCAAGCTAAACAGTTTGATCACACATGACAGTGTTGAAGTACATGCAGAGGGAAATTTCTCCACACAACCTACACACTATAACTGAATAATGCCATACACATTAAAAGCAAATCAAGACTGGCACTGTAACTAAATCAAGGCTTACACATTAGAAGCAAATCACGGTTGTAATCATCAACAACTAAGGTCCAACCACTTCCTTCTCATGGCCCTATGACACTGAGCTAGAACGAAAAGGAAAAAAGAGAACAGGAACGACCAGGCAGCTATTGTCGCGGAGCCGCAGCTGTCTTCATCGCGGTCCTGGTCAAGCCGACACTCTCCCTTCCCTTCTCATGGCACTGAGCGAGGCTCTCATGGAGAGGGAGAGGAGAAGATGGCAGTGGCGGCGGCCGGAGAGGGACAGGAGAAGAGGGCAGCGGCGGCACCCTATTGACTCCATCCGGGCGACCGATTCAACTGGAGGGGAGGCCAAGATTGATGAATCAGACGGTCCCCGAGCCATATTTGACACCGCAGAGAGGGAGCGGCGGTGGCAGCACGGTAGAGGAGAAGGGAGCTGCGGCGGCGACGGCGCTTGCGAGCGGAGGAGGTGGGCGTCTGGGCGCCGGATCCGCCGGCGAGGAGACCGGGGTCACCGGATCCGGCGGTCCCGGCCTCCTCACTAGGAGATCCGGCGGGTCATTGGGAGGGAGCGGCGGCGGCAGCACAGTAGAGGAGAGGGAGCTGCGGCGACGACGGCGCACGCGAGCGCAAGAGGCGGGCGAGGTTGCGGTGCGAGCTGAGGAGGTGGGCGACGGCGCACGCGAGCGCAGGAGGCGGGCGAGGTTGC

Coding Potentia
Explanation CPC Score
noncoding -1.07979
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa02LNT0162000.2 2 14980356 A G
Osa02LNT0162000.2 2 14981419 G T
Osa02LNT0162000.2 2 14981756 T C
Osa02LNT0162000.2 2 14980000 A G
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa02LNT0162000.2 osa-miR5536 Translation 4.5 13.367 1 22
Osa02LNT0162000.2 osa-miR395f Translation 4.0 6.524 1 21
Osa02LNT0162000.2 osa-miR2095-3p Cleavage 4.0 17.407 1 20
Osa02LNT0162000.2 osa-miR2103 Translation 5.0 17.965 1 22
Osa02LNT0162000.2 osa-miR2871a-3p Cleavage 3.5 16.468 1 21
Osa02LNT0162000.2 osa-miR2871b Cleavage 3.5 16.468 1 21
Osa02LNT0162000.2 osa-miR5083 Cleavage 4.5 13.952 1 20
Osa02LNT0162000.2 osa-miR5523 Cleavage 3.5 13.515 1 22
Osa02LNT0162000.2 osa-miR5543 Cleavage 4.0 14.329 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa02LNT0162000.2 2 d50 Morphological trait Dwarf nan nan
Osa02LNT0162000.2 2 qPH-2 Morphological trait Dwarf RG324 RG83
Osa02LNT0162000.2 2 np2.2 Morphological trait Culm/leaf RM324 RM262
Osa02LNT0162000.2 2 qSS-2 Physiological trait Sterility RM301 RM263
Osa02LNT0162000.2 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