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

>Osa02LNT0177000.1

GTGAACTGAATCCAAGGCCAAGTCAAGGAGAAACAAAAAATGTGATAATTCCCCCCAAGGGCCAATTTCGACCACAAAGATTTGATAATATTCTGACTGAAACAGACCTCCATTTTTAGAGCATAAAAAGATTTAGATGATATATTCTGACTGAAACAGGCCTCCATCTCTTTGTCATGAAAATTCTGCTTCATAACTGCATACAAATAGAATACAACACACAGGTCGGTGGCTAGCCTACTTCACGACGATGTTAACACAAGTCCTTGTTAACAAACGTGCAACTTCAATCATCCATCAAATTTTCTTTTTCACCATCCAACACTAAAGATATGGTATAGCGTCATTTTTTTTAAGAGGGGTTAATACTGAAACGTCAGTGCTGGCGACCTGATGCCTTGGGGGAAAATTGTTGGCCAAGTCGGATCCACGAGGGTACCAGATGACTCCTGGATGTCTCAACGTTTTCGAGTCGCCTGCGACCACCTAACGCCCAGCTAGCAACTAATTGGGAAAAGAATACCATGCACTTCCTCTTGTTGGATTGGTCTCCTCGCTGCCTCGACAGTTGCTAGGTGCGCTAGCTCATCTCGTGCTTCCCAAAGATGCCGGGAGAGGCGCGGCACTGGTCGAAGCGGCGGAGCACCTCCGGGTCGTGCATGGAGAGCACGAAGCGCGAGAGCGCCTCGAGGAAGAGCGCCGCCTGGTACCCCCCGGCGGCGGCGACGAGCTCCGAAAGAACGCCTCGACGGAGCCTGTTGGCATCGAGGGCGACGTCCTTGAGCTCCTCCAAGAACGCCTCCACGTCAGCCGCGCCGGACACCTCGGCGGAGATGAAGGCCTCCTGGACACGGCGGAGGCGGTCGGAGATTGAGGGGACGGCCGCGCGGATCCGGCGGTCGACGCGGTCGGTAGCGGCGAGGAGCCGCGGGGAGGGCGAAAGCGACCGGAGGAGGGAGGTTACGAGGGACGGGTGGAGGTCGCCGACCCACAGGAAGGGGAGCTCGAGAGGCGAGCGCCAGTCTCCAGCGGAGACGGCCTGGGCGGGGTCCTGGCGGGCGGCGGCGTCGAGGGCGGACCAGTGCGCCTGGAAGTGGGCCTCGACGGCGGCGGCGGCGGAGGAAAGCGGGTCGTCCCAGCCTCCGGACGAGGAGGAGGAGGAGGAGGAGAGCGCGCGGCGGAGCAGGGGGAGGAGCGGCGAGCGGAGGGTGGATAGCCAGGCGGCGAAGAACTCCCGCATCGGCCGCCTGGCCCCCGGAGCCCCGCGACCAGGAGGAGGAGGAGGAGGAGGCCTCGGCATTCTTGCGGCTGCGGTGGCGCGGCGAGGGGAGGCGGTGGTTGGCCGTGCCCGGCGTTAGGGATTCCGGGGGAGATCGCCG

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.83672
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa02LNT0177000.1 2 26774508 T C
Osa02LNT0177000.1 2 26774934 A G
Osa02LNT0177000.1 2 26775132 C G
Osa02LNT0177000.1 2 26775341 T C
Osa02LNT0177000.1 2 26775624 T A
Osa02LNT0177000.1 2 26775654 T C
Osa02LNT0177000.1 2 26777728 T C
Osa02LNT0177000.1 2 26778531 T C
Osa02LNT0177000.1 2 26778602 G A
Osa02LNT0177000.1 2 26778619 A G
Osa02LNT0177000.1 2 26779470 A G
Osa02LNT0177000.1 2 26779561 T C
Osa02LNT0177000.1 2 26778302 G A
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa02LNT0177000.1 osa-miR5791 Cleavage 4.0 21.622 1 21
Osa02LNT0177000.1 osa-miR7694-3p Translation 5.0 10.13 1 22
Osa02LNT0177000.1 osa-miR1846a-5p Translation 5.0 24.993 1 21
Osa02LNT0177000.1 osa-miR1846b-5p Translation 5.0 24.993 1 21
Osa02LNT0177000.1 osa-miR812f Translation 3.5 8.67 1 24
Osa02LNT0177000.1 osa-miR812g Cleavage 5.0 8.87 1 24
Osa02LNT0177000.1 osa-miR812h Cleavage 5.0 8.87 1 24
Osa02LNT0177000.1 osa-miR812i Cleavage 5.0 8.87 1 24
Osa02LNT0177000.1 osa-miR812j Cleavage 5.0 8.87 1 24
Osa02LNT0177000.1 osa-miR1846c-5p Translation 5.0 24.993 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa02LNT0177000.1 2 nan Physiological trait Germination/dormancy RM263 RM221
Osa02LNT0177000.1 2 qSB-2 Resistance or Tolerance Sheath blight resistance G45 RZ273
Osa02LNT0177000.1 2 qCHR-2 Others Others RM263 RG520
Osa02LNT0177000.1 2 nan Physiological trait Eating quality C621 C370
Osa02LNT0177000.1 2 Hbd2 Physiological trait Lethality nan nan
Osa02LNT0177000.1 2 nan Physiological trait Eating quality nan nan
Osa02LNT0177000.1 2 nan Physiological trait Eating quality nan nan
Osa02LNT0177000.1 2 qSDW2 Resistance or Tolerance Cold tolerance RM263 RM6
Osa02LNT0177000.1 2 T2-2tiller Morphological trait Culm/leaf C424 C747
Osa02LNT0177000.1 2 oa2.1 Resistance or Tolerance Drought tolerance RM263 R3393
Osa02LNT0177000.1 2 qGRH-2 Resistance or Tolerance Insect resistance C621 C601
Osa02LNT0177000.1 2 qPH-2 Morphological trait Dwarf RG324 RG83
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