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

>Osa02LNT0178500.1

TGACCACTATGAGCATATATATTGAATACAAGAATTTACATGGATCATTTGTTTTTCTTTTGTTATATTAGCAAACACATAAGAACGCACACTCTAGGGGATTTGACATGAAAAGTACCACAGTTGTGACAGAAGTCGCGTGGGACGAGAAGCTAAATACCGATTATGCTTGGATTCTCTCGTGGAGATTTATACTTCTTCACTACCACTGCTGCTACTGTTTTTTCGAACATTGAACTTGCATAGGGGACAAGTCGCATTGATGTGCAGCCATTTATCAATGCAGACACAGTGGAAATGGTGCCCACAAGGGAGCTCACGCAGCTCTGCACCATCATCATACGCTGACAGGCAAATGCAGCACTCCGCATCTTCAGCTGCAAGTACTTTTTCAATAGGTTGGTTGGTGCCACATTCTATCATTATTCCACCGGAAGATCCAGTCATGTTGACAGATTGCTTTTCAGGCTCATCCATCCTCCGAAATTTGTATCTTGGAATTTGGCGAATATCATCTTCCGATGCTCCCTCCTGATCAGACACAGCATATAAAATTGCTATGATACATGGGAGGCAGCAACAAACAGCAATTCCAATGATGCAAGCCAAAGCAACACAAAAGACGACAAAGAAAACATCAAATGCCAGAAAGACGATGCAAAGCCAGTAAAGTTGAGGTGCATCATGAGTAAGAACTTGCCCACCAGCAGATACCCAGTAAAATCCGATTATCCACCATATAAAGGAGAACATTGTATTAGCAGACTCCAGATGTTTTGCAATACTGCAAGCAGATTTATGAACAGAAAAATTATCAGGATAGAAGATATGGTGGCCAACTGAACTAAAAGCAAACCATGAAAAATAAATTAAATGGAAACTATTTCCATTAAATACACTAAACTAATTATAATAGCTCTGATTTCCCATAGAAATAAAAATTTCTAAAATAAAACTAGGAAGGTGTGGTAAATAAAAATGAGATAAAGGCTTATAGAAGGTAGAAAAGCACAGTCGCATTTCAGCATAGAAATATGAGAAAGTTATGCTATATTCAGAGATACACAGCAGAGTGACCACATTAGTGTGCCTCTCCTCTCTAACTGACAATCAAAACCTCCAGCATCCAGCATAGCATAGATGCATGCTATATTATGTCTGTTAAAGCCACAACATGCTTGAAGTCCATCTTAAGAATTGACATTCTGCAGACAACTCATATTGGCACTAACATAGAAAAACCAGTATGATTCATGTAACTTGCATTACTAGAAGCAACTAGGTGGATGACGAACTAAGATAAAGTGGACAACAATAACTTCTGGCAAAATAGGAACAAATGCAACAAAATATATCTTAGTGGATTCACAGACAAAGGTACTTGTTCAAGATCACCAAGACTTAACTGAAAACCCAAGGAACAAACAAAGTTAGTTTTAAATATTCATATAATTAAAATCAAATTTGGTAGTCATTCTTGTTTATTCTATAGGACTAAAGCTACTGAGAGCTTTAAAAAGTAAGCGATCATGCAGAAATAATAAGGTTGTCACGATATAGCAACATAAGAAACACAGGTGAGAAAATTATGCATGTCCAGTAAATATATGAGCAGATATTTTGTTACAGGCTTTCAGGTTATGGAAATCAAGCTAAAAACATCCACTTAGAACTTCAACTATAGGTCCATTTCATGTATTCAACTATCTTTGTTCACATATCAAGCCAAGAGTTAATTCAACCTTGGTTGGGAACTCTCATATGGTTCTCCTTGTTCCAATTAGGCAAAAATTAAGACCCACAAGGACACGACCAACATTTCTAGCATACATTATGAACATAGTTAAAGGATTAGTCTTGAAATTTGGTACAAAATTACTAGGATACCTGTAGTGTGACCACAATTTCTAGTTTACCATGAAAGGAACGATAGCCTTGAACTTAACAGTGAAAGACTGAAAGTTACTTCAACTAGAACAAAGCTAAAGTTTAGAACAATTAAAGGATCGGTAATAGCAACAATCCCTCTAATCAGTCCTTTACATTACCGAACATAATCGCCATTGCGGCCACGGGGAGCACGCTCGCCGGCGTCCTCGTCACTTGACGACGACGATCCATCGGTTCCTGTCTCCTCGTCGGCGGCCATGGGGGATTCACCGCTCTGGCCGCGGCGCATACGGTACTCGATGGCGACGCAGGCCATGTGGAGGACGCACTGAACGGCGTACCCAACGATCCAGAGGCGGAGCGGCATGGACGGGCTCTCTTCGCGGCTCAGCGCGAGCACGGCGGCGGCAACGAGGATGAAGGCGAGGTTCCACAGGAGGTCGAGCGCCACCACGGGGCGGGAGTAGGCCCAGTCGGCCTGCCGCTCCTCCAGCTGATCCGCCGCCGCTTCCCGCACCAGCAGGGACGGCTCGCGCATCGCCCGGCGACCGCTCCGGCGCAGGAACCGAGCCGCTCCCCGGAGCGACGGCCGCCGCAGCGCGCCACCGTGGCGACGGCCGCCACCGCCGCCGCCGCCACCGAGGAGCGGTGCCGAGTCCAGGCGCGCGTCGCCACGGGGGCTTGGGGATCGTGGCGTCGCCATCGCCGGAACCCTAGCCGCGGAATGGGGAGGAACGTGTGGGCTGGGGCTCTGGTACTACCTTTCC

Coding Potentia
Explanation CPC Score
noncoding -1.01081
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa02LNT0178500.1 2 27481288 C T
Osa02LNT0178500.1 2 27483362 T 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
Osa02LNT0178500.1 osa-miR5822 Translation 4.0 18.648 1 21
Osa02LNT0178500.1 osa-miR5822 Translation 5.0 13.701 1 21
Osa02LNT0178500.1 osa-miR160d-3p Cleavage 5.0 18.794 1 21
Osa02LNT0178500.1 osa-miR169a Translation 4.0 16.453 1 21
Osa02LNT0178500.1 osa-miR169d Translation 3.5 16.453 1 21
Osa02LNT0178500.1 osa-miR169e Cleavage 5.0 11.715 1 21
Osa02LNT0178500.1 osa-miR169e Translation 4.5 16.453 1 21
Osa02LNT0178500.1 osa-miR169f.1 Translation 4.5 16.453 1 21
Osa02LNT0178500.1 osa-miR169g Translation 4.5 16.453 1 21
Osa02LNT0178500.1 osa-miR169h Translation 4.5 16.453 1 21
Osa02LNT0178500.1 osa-miR169i-5p.1 Translation 4.5 16.453 1 21
Osa02LNT0178500.1 osa-miR169j Translation 4.5 16.453 1 21
Osa02LNT0178500.1 osa-miR169k Translation 4.5 16.453 1 21
Osa02LNT0178500.1 osa-miR169l Translation 4.5 16.453 1 21
Osa02LNT0178500.1 osa-miR169m Translation 4.5 16.453 1 21
Osa02LNT0178500.1 osa-miR419 Cleavage 5.0 12.346 1 21
Osa02LNT0178500.1 osa-miR438 Translation 5.0 21.262 1 21
Osa02LNT0178500.1 osa-miR169r-5p Translation 4.5 16.453 1 21
Osa02LNT0178500.1 osa-miR1872 Cleavage 5.0 13.263 1 24
Osa02LNT0178500.1 osa-miR2092-5p Cleavage 5.0 22.909 1 21
Osa02LNT0178500.1 osa-miR2871a-3p Cleavage 5.0 7.847 1 21
Osa02LNT0178500.1 osa-miR2871a-3p Cleavage 5.0 11.533 1 21
Osa02LNT0178500.1 osa-miR2871b Cleavage 5.0 7.847 1 21
Osa02LNT0178500.1 osa-miR2871b Cleavage 5.0 11.533 1 21
Osa02LNT0178500.1 osa-miR2878-5p Cleavage 4.5 11.417 1 24
Osa02LNT0178500.1 osa-miR5507 Cleavage 4.5 11.09 1 21
Osa02LNT0178500.1 osa-miR5513 Translation 5.0 9.815 1 21
Osa02LNT0178500.1 osa-miR5521 Cleavage 3.5 21.869 1 21
Osa02LNT0178500.1 osa-miR5525 Cleavage 4.5 15.773 1 22
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa02LNT0178500.1 2 T2-2tiller Morphological trait Culm/leaf C424 C747
Osa02LNT0178500.1 2 qSDW2 Resistance or Tolerance Cold tolerance RM263 RM6
Osa02LNT0178500.1 2 oa2.1 Resistance or Tolerance Drought tolerance RM263 R3393
Osa02LNT0178500.1 2 qGRH-2 Resistance or Tolerance Insect resistance C621 C601
Osa02LNT0178500.1 2 qPH-2 Morphological trait Dwarf RG324 RG83
Osa02LNT0178500.1 2 nan Physiological trait Germination/dormancy RM263 RM221
Osa02LNT0178500.1 2 qSB-2 Resistance or Tolerance Sheath blight resistance G45 RZ273
Osa02LNT0178500.1 2 qCHR-2 Others Others RM263 RG520
Osa02LNT0178500.1 2 nan Physiological trait Eating quality C621 C370
Osa02LNT0178500.1 2 nan Physiological trait Eating quality nan nan
Osa02LNT0178500.1 2 nan Physiological trait Eating quality nan nan
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