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

>Osa02LNT0162400.2

AGGGATAGTACAGCAGGAATTTCGACAGGATGAATAATGCAAAAAAAAAAAAGACAGGATAAATAGCACAAAAATTTACATAGAAATTTGGCCTTTCATGGATCCATTTTTTATGTTGATAATAGCATAAAAGCAGTCCACTCAAGATGGAGTTAAACGCCATAGATGCAATTGTAAATTGAGATTTAATTTTCTACCAAGTTTGTGGTTTAGCTAAAGCACTAAAGCACAAACTTACCCTTTTTGAAAATAAGCAATAGTATGAAAAAGCTTACAGCTGCTTTCACGAATTTATACTGTAAATCTGGTTCTATGACTAATTAAGCATACTCTACAAACAAAAGCACGACGATTATAAAACAGAATAGTACAGTAGGAATATTCAAAAATGAAATTTCAGCTTTGCATGGCAGCAACCTCACCCTCCAGCTCTGAAGTTTTTTTTTTTTTTTTGCGATAGTCCAGCTCTGAAGCTTTGTGGGAGGAACGAAAGAATATTTCATTATATCAGTTGTTTTTGGAGAGCTTGGCCATCCCTGGGCAATAAGAACTTGGTTGCTCGTTTCTGAGGAGCTGAAATGAAGTGAAGCAGAGACATGCCAATTGGCCAAGTGAGATCCCCTCCAATGTGAAGCAGATACATGACAACTGGCCAATTAGCCAAGTGAGATCCCCACTAATGTGAAGTAGAGACATGCCAACTGGTCAAGTAAGATCCCCTCCAATTATTCAGGTTGTACTTTCAATTCTTTTTTAGTAGTAAAGGGCACATGAAAGAAAAAAAACGTAAAGAAGATCATCTCTTCAATGATGGTATTATAAATAGTGAAGGAATGCTACATTACTTACCAAAGCCATTCATAATTAGATAGCTTACATATAATCCAGTTTTTGTTTAGGCTTAAGAATATTATTAAAAAAATGCCATACTAACGAAAATAGTTTAACATTTAGCCTATAAAACATAATCTGATAGTTTTCTTCTGTTACGCTGGTAACATTTTATTACAAGATAAAAAAGAACATTTTATAACAAATAAATCCTACAATCTCAGCAATAAATACTATATTTTGTGGCATAAATTTGCTTCTAGTCAAGATAACAGTCACGGATTTGACTTAACATCTTGCACAATATCACAAAAAAATATTATATTGACCAATAGAACCAAACTTGTCACTTGCAATTTTCACTAATGAAAATCTACAATTCTGAGCAATGAAAAATCCAAGCAACTTTAACACTTGAACCACATCAATAAAAAAATGATATAGAAACTTTGAAACCCACCTCGGCAAGACCACCACACCACTTTTTATAACTTTGCATGATCAAATTGTGGACAAATGCAATACAATACATTATTCATTGCCACATGCAAGATAAATATGGGGGTGGCCAGTAGCATCTAGAAAACAAAGTAACAGATCTCATTTTTATATGGGTTAATTGGATCCATGCCACTACAAATACGCCATTTTAGATAAATGTTACTACTATTTACGATATCGGCTACATGCTACTGGAATTTGGGGAAATTAGAACCGTGCCACTCCATCGCGTTTTCCGTCAAAAATCACCGTTAGCCTCAACTGCACGTGGGGAAGAAACAAGAGGGAGGATGGAGGAACTATCTTTGTCTACCCCTCTTATTTTCAAAGAAGTGTTGTTATTGCTATCAGTCAGTCTAACAGCCATCATGTCCATTTAACAAAATATAAAACAACCCAGATATGAATCGCTTTGTAAATTCAACTCAAGCAGATTAACAAATCCAAATTCCAACTGAACTTGCAGATAAGGAATGAGCAAGTAATAATAAGAAGAAAAAATTGGTTTAAAGGCATGTTGCCCATATTTAGAGGGAAAAAAGTGAAAATGTCTTCTAGCTCTAGTCATTCCTCTCCGACCAACTACTGTAAATAGTGCATAATAAAAAGATAAATCCAATGAAATATATTACTTGTGCAACCCAACATCAGGATGGCCTCAATTCATTCATCGCGCCTTGTATATATCATCTAATTCATTCATATCCCTCAATAATTAACATCCATCATTCAAAAAAAAAACACCCATGTAAAAAAATCTATTGCACTCCTAGCACTGCAATCAGCATACATGTGTACTGCATTTTGTTCTATTGCACTCCTAGCATGTCCACTTTGTTAGCTGTGTGCTTCAAAATCTTAGGTGCTGGCATTTTCAGAAAATAAACATGAAGCATCATTGCCATGTGTAGATATAAGAAAAACAAGGGCAACAGATGATTAAATATAGTTGTGGTTTGCACAGTATTAAGGATTTAAGGTGGGGATTTCTACCAGATCATTTGAAGTGTGCCTCTGAATTTGCTGAGTTTGTTGCCTGATAATGTCTAAGTTGATTCTCAAATGTTTTCATGACCAAAGGCTGACAGTGTTGTATTGGCATCCAAAGTTCTTACTCTTAGTTTTGTACCATCCTGAGGCATTTCAATTTCTTGCCAGTTATTTATCTGCACAAAATTGGAAAGCATAAAAGAAAATGCAGACAGAGAGCATCAAATAGTACACTCAATTATCACATAACCTCATCTACTCACAGAATTAGTTCCGCATTCAGCCTATAAAAGCTCGCCCTATGTTTTTTCCCCTATTGAGGTAGTAAAATGATTATTACAAATGAAATTTTCATCATTGTAAGAAGATCCTGTGGTAATTTCTATTTATCCCTTGGTTGTAGGCCAATTGAGCAAAAGAAGGCATAGGATAAAAAGTTTTGCAACATGAAAAAGGGATCAGTATAGCTGATCAGCAACTGTTTGGGGTTGAACAACCCTACCTTCCTTCCCAAAGAATAAGAATCTCCAAAGGATCAGCAATTGTCTTCTAATTATATCCTCTGGCCAACAATAAGAATCTCCGAAGGATAGAATACTTTTCAAGCATAAACATTCATGATTAGTGTTCAACTGTTCAGTAGCCACCAAATCCCAGTGTACTACTGAATCCAAATTCAGTTTCCTTTTAAATAAACAGATGATATCTATGTGCATGAAGGTAATCAAGAGGTCTGATGGCAAACAAAACAGCAACATCTACTGCTAGCCTATCTAAACTACAGGAGAACATATTGCCAAATACTTTTTGTACATAAACAATTCAAGTCGAGTATTCACCTGTTTGGTAGTCACCGAATCCAAATTCAGTTTTCTTTTTAAATAAACAGATAATATCTATGTGCACCAAGGTAATCAAGATGACTGATGGCAAACAAAACCAGCAGCATCTACTGGTATGCAATTGCCGCTATGCTGTGGAGCTTCATTGGTGGCTCTTGTGTGAGAGGCAAAGCAACTGTAGATGGTCGACCACCTCTTATACCTCTTAAACTTTTATCCTGAAAGATAAAAGAAATTTGAGTTACTTGCCAAGAACCTTTTTGGCTGCGTACAATGCTATTCTTGCTTGATGCCGTCGCCGGCCAGAGCGGCTTCAAGCTTCCGTGCAGCACCGTATTACTCATCTTGCCAAATCCAGCACAGTGTTGGAAAGAAGAAAGATGAGGGTGGGGAGCAGAGCATTTCCCCATGGAGCTCACCGCCGTACTGTCGATGAGCCTCCTGTGCTAGCCCTACCCTCGCCTCCGGGTGACCGGATCCGCCGGCAAGGAGGTCGTGGCTACCGAATCCGGCGGGCATGGCCTACCCTCCGCCGGAACTGGCCCCGCGGTGGCAAGGGGAAGGTGCGACGATTTGGCTAAGTGTGAGAAAAGTGGTCGGCGGCGGCGGCACGGGGGGGTGAGGGCGCGAGGAGGCGGCGGCGGTGTGGTCTAGGGGAGAGCGAGCGAGAAGAGAGGTGCGAGGGAACGGT

Coding Potentia
Explanation CPC Score
noncoding -1.29944
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa02LNT0162400.2 2 15444102 G A
Osa02LNT0162400.2 2 15445744 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
Osa02LNT0162400.2 osa-miR5533 Translation 5.0 19.432 1 21
Osa02LNT0162400.2 osa-miR5534b Translation 4.5 10.76 1 21
Osa02LNT0162400.2 osa-miR5536 Cleavage 5.0 12.97 1 22
Osa02LNT0162400.2 osa-miR5543 Translation 5.0 17.762 1 21
Osa02LNT0162400.2 osa-miR5809 Translation 4.0 22.599 1 20
Osa02LNT0162400.2 osa-miR5825 Cleavage 4.5 21.172 1 24
Osa02LNT0162400.2 osa-miR5830 Cleavage 4.5 5.986 1 24
Osa02LNT0162400.2 osa-miR2873c Cleavage 4.5 12.618 1 21
Osa02LNT0162400.2 osa-miR5079b Cleavage 4.5 17.833 1 22
Osa02LNT0162400.2 osa-miR5079b Cleavage 3.5 10.526 1 22
Osa02LNT0162400.2 osa-miR156a Cleavage 4.0 15.675 1 20
Osa02LNT0162400.2 osa-miR156b-5p Cleavage 4.0 15.675 1 20
Osa02LNT0162400.2 osa-miR156b-3p Translation 4.5 11.163 1 21
Osa02LNT0162400.2 osa-miR156c-5p Cleavage 4.0 15.675 1 20
Osa02LNT0162400.2 osa-miR156d Cleavage 4.0 15.675 1 20
Osa02LNT0162400.2 osa-miR156e Cleavage 4.0 15.675 1 20
Osa02LNT0162400.2 osa-miR156f-5p Cleavage 4.0 15.675 1 20
Osa02LNT0162400.2 osa-miR156g-5p Cleavage 4.0 15.675 1 20
Osa02LNT0162400.2 osa-miR156h-5p Cleavage 4.0 15.675 1 20
Osa02LNT0162400.2 osa-miR156i Cleavage 4.0 15.675 1 20
Osa02LNT0162400.2 osa-miR156j-5p Cleavage 4.0 15.675 1 20
Osa02LNT0162400.2 osa-miR169f.2 Translation 4.0 10.96 1 21
Osa02LNT0162400.2 osa-miR171i-5p Translation 5.0 16.063 1 21
Osa02LNT0162400.2 osa-miR1424 Translation 4.5 16.134 1 21
Osa02LNT0162400.2 osa-miR1425-3p Cleavage 4.0 14.223 1 21
Osa02LNT0162400.2 osa-miR1442 Translation 4.5 14.241 1 20
Osa02LNT0162400.2 osa-miR1875 Cleavage 4.5 15.745 1 24
Osa02LNT0162400.2 osa-miR812g Cleavage 5.0 14.231 1 24
Osa02LNT0162400.2 osa-miR812h Cleavage 5.0 14.231 1 24
Osa02LNT0162400.2 osa-miR812i Cleavage 5.0 14.231 1 24
Osa02LNT0162400.2 osa-miR812j Cleavage 5.0 14.231 1 24
Osa02LNT0162400.2 osa-miR1320-3p Translation 4.0 17.924 1 21
Osa02LNT0162400.2 osa-miR2864.1 Cleavage 4.0 13.982 1 21
Osa02LNT0162400.2 osa-miR2869 Cleavage 5.0 20.232 1 21
Osa02LNT0162400.2 osa-miR5079a Cleavage 4.5 17.833 1 22
Osa02LNT0162400.2 osa-miR5079a Cleavage 3.5 10.526 1 22
Osa02LNT0162400.2 osa-miR5153 Translation 5.0 13.341 1 24
Osa02LNT0162400.2 osa-miR5153 Translation 4.5 14.867 1 24
Osa02LNT0162400.2 osa-miR5524 Translation 4.0 17.659 1 21
Osa02LNT0162400.2 osa-miR2873c Cleavage 4.0 14.12 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa02LNT0162400.2 2 nan Resistance or Tolerance Drought tolerance RG83 RG171
Osa02LNT0162400.2 2 qPH-2 Morphological trait Dwarf RG324 RG83
Osa02LNT0162400.2 2 d50 Morphological trait Dwarf nan nan
Osa02LNT0162400.2 2 qSS-2 Physiological trait Sterility RM301 RM263
Osa02LNT0162400.2 2 np2.2 Morphological trait Culm/leaf RM324 RM262
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