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

>Osa10LNT0071000.2

CACGACGGATTCGGCCCATTAGCTCCATAATAATGATTTCGATAAATGTGAATCTAAGACAAAATGTATACACTGCGATAACTATTGCGATAAAATCTAAGGTGATCATACTAACTTACCGCCTAACCTAACCAGGTAGCTATAGCTTGTCATGCAGATGCAGCGAAGCTTCTGTTGTACAACGATGAAGCTACAGATCGAAGACTTTTTCCATCGCCAGAACAGCATCATCCTCCAGCAAATTTGAATGGTACCTTCTGAAAATTCCCCAAATATCACCTCTTTCAAAAGTTTGAATCAGCTAGTTCTTCAGAAAGCTGCCATTGCTATTCCCATCTTCAGAAAGCTGCCTTTGCTAGTGAGTGGCCCTGGCCTTGGACGTGCCCAATAGGCTATTTACATATGAGAGCAAAACATCGCATTTTACTCATTTTCCAAATAACCTTAATGCGAGGGCATAAACATCCTTCTTCTTTGCTGATGTAGCTTCACTCACCATTTTCACTGCCGCTGACAGAGGATGTCCCTGCGTCATCAATTCTCTGAGTTCATGCTCAAGGAAATCCTCAGATGGAGTTTCATCAGCTGAAATTAACTTTCCCTCTATGAGCACTGTAATTTCTCCCTTTGGCTGCCGAGTTGCAAAGGCTTCATTTGCTTCACCAATAGTTCCCCGCCAAAACTCTTCGTGTAATTTCGTTATCTCCCTTGCAATAACACATGACCTAGAATCACCAAATGATGAAGCAGCATCAGAAAGAAATTGGTGAATTCCATGGGGAGGAACATAGAAAATTTGTGTGGCAGCTTGACAGGCAGATATTTCAAGCCTTTCTTTTCTTGATCGAGCATGCAAATGTAAATTCATCAGTTGGCAAACCAGATGCAGAAAGAGCAGCTATTGCAGCAGACGGCCCAGGAATGGGGATAACAGGGATTCCCTCAGTAGCACATAGTCTAGCCAGTTCCATGCCAGGATCACTAATTCCAGGAGTACCAGCATCACTAATCAATGCAACTGCTTCCCCTTCATGAAGTCTCTTTAAGATATTAGGCTCTCTTTCACGCTCATTAAACTTATGAAAGCTGAGAAGAGGTGTCTTGATGTTATAATGTTGAAGTAGCTTTCCAGAATGCCTTGTGTCTTCTGATAGTATGACATCAGCACATTTGAGGATACGCAATGCCCTTAAGGTGATATCCTCGAGGTTCCCGATTGGCGTTGCCACAAGATACAGCCCGGAATCCAAATCCGGTTCCGAGGCAGGTGACTCCGGCGAGCTGCCAGAGGCGGCGGCGGTGGAGAGGCGGCCGGCGAGCGGAGCCGTCGCAGTCGTGACGCGGAGAGGGAGGAAGGGGAGGCGGCGGGGTGCCGTTAGGTTCAGGGCGAGGGCCTGGAGGCGGAGCAGCGACGCCATGGGCTGCGGCGGCGGCGGCGGCGGCCGGAGAGGGAGGCGAAGCGTCGCCGCCGTTTGCTCCC

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.888876
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa10LNT0071000.2 10 14476210 G A
Osa10LNT0071000.2 10 14476355 T C
Osa10LNT0071000.2 10 14475554 T C
Osa10LNT0071000.2 10 14476889 T C
Osa10LNT0071000.2 10 14478380 G A
Osa10LNT0071000.2 10 14478478 G C
Osa10LNT0071000.2 10 14478498 A T
Osa10LNT0071000.2 10 14476376 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
Osa10LNT0071000.2 osa-miR5542 Cleavage 5.0 9.378 1 21
Osa10LNT0071000.2 osa-miR6248 Cleavage 4.5 16.111 1 21
Osa10LNT0071000.2 osa-miR2100-5p Cleavage 4.5 13.921 1 22
Osa10LNT0071000.2 osa-miR2118a Cleavage 5.0 17.955 1 22
Osa10LNT0071000.2 osa-miR2118b Cleavage 4.5 17.955 1 22
Osa10LNT0071000.2 osa-miR2118c Cleavage 5.0 17.955 1 22
Osa10LNT0071000.2 osa-miR2118f Cleavage 5.0 17.955 1 22
Osa10LNT0071000.2 osa-miR2118j Cleavage 5.0 17.955 1 22
Osa10LNT0071000.2 osa-miR2118m Cleavage 5.0 17.955 1 22
Osa10LNT0071000.2 osa-miR2118n Cleavage 4.5 17.955 1 22
Osa10LNT0071000.2 osa-miR2118q Cleavage 5.0 17.955 1 22
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa10LNT0071000.2 10 Phyllochron Morphological trait Culm/leaf R1629 R2447
Osa10LNT0071000.2 10 ssd10 Morphological trait Panicle/flower RG257 RZ583
Osa10LNT0071000.2 10 nan Physiological trait Sterility C701 C16
Osa10LNT0071000.2 10 nan Resistance or Tolerance Other soil stress tolerance R1629 R2447
Osa10LNT0071000.2 10 nan Resistance or Tolerance Drought tolerance RZ892 BCD386
Osa10LNT0071000.2 10 qSPB2-1 Morphological trait Panicle/flower C1633 RM239
Osa10LNT0071000.2 10 qSPBp10-2 Morphological trait Panicle/flower C1633 RM239
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