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

>Osa10LNT0076100.1

GTCAAAATGTGGCTTGTAGTGCATTTGATTGCATGCCGAATATGTGTGATGTACAGAGGTTTGTAAATACTACATATATGGAAGAAAAGTTGTGCAGAGGTTTGTAGATACATATCGAAGAAAAGGATTCATGTCGGCTCTATAAACAGGCTTGACTTAATCATCGAAACACTGTTAACATTGACATAAACGGTTATAGAAAGGTGGGAATTTGGGTGGATCATCTGCAGCCCAGCTCTAATCTTGAGTCTGCGCTGATGGAAGTGTTGGTGCATAGCTTCTGAAGGTCAATGTAGCCGATTATCGTGTCCTCAAACACGACGTCCTGCATTTTAGCGTCATCGAAGGTTGATCCTGACAAGACGGTGTTCCTGAAGATTGCCCCTTGGAGATCGGCCTTCTCAAAATTGACACGGTCTATTACTGCATTTGTGAAATCCGTTCCTTTGAAGCTTGCCCCCACAGCATAAGCTTTGGACATCACAACTTCAGACATGTCGGCCCCATCAAACTTTGAATCGGACATCAAGGCTGCAGCTAGAGATTTTCCTTTCAGATTAGTTTTCTCGTTTGTGTAATCGCAAAACCGGAGATCGAGTGGCTTGTCATACACCCCATTTGCCTGACCAATTGTGTTCCCGACAAAAGCACGCTCGCATCTGTTTGGCTCTGTGGACAGTGGAGGCAACCTCTAACAACCAGAGCAAACAGGGTATGATGTTATTTTAGGAAGACATAAAGCCATTGAAGAAAAGAAAAATAACTCTGGGAGGCTAGAATGAGTTTAGAAGAGCAAATGTACTGTAAATTTGTACTGACTTACATAATACTGCATATATTTGGGTCATACCTATAGGATACCATTTACTTTGCAGTTCAACTGGAGCAAAAATGTCAGTGTTTCCTAAATGAAATTTGTGATCAGAAATACAAAATACGCTGCATACTTCTTGAGTGAATTCTCCAGATATGTACAAAAACCATTTATATGTGCACTCAAATCTGAACTCACAATTTCACATGCACTGGTATAGTAATCAGTATAAGAATTTCTTGCTTTACATTGCACAGAAAGCATTTGCCAAAATTAGGGTGCCCCCCACAGATAATAGAATACCATATCAATCAGTCAGTGTTGCAACAGTTGACAGCAGAAATTTCAGACATTGGTAAATCTCGTCAACCCATACGCCCTGTTTTTTTTCTTTTTGACGTTGGTTAGTCATATAAAAAGGAAAGAAGGGGGTACCTTTTAAGAATTATACATTTCAGACGGTGGTAAATCTTGTCAACATAAGTATTTAATCAAATTCTAAAAGCTCCAACACCATTTTTAGTCAGAAGGCATATTCTTTTTAAGAAAAAAAAAGAGTAAATTTCACAAAACTACAAGTATTTTGACCAAATTATCACAAAACTACAGATTTAAGGAGTTGTATCACAAAACTACATATTTAGCACCAAATTTATCACAAAACTACATATTTTAGATGAAGTATCATAAAAATGCATATTCAATATTGAACTTATCACAAAACTACAACTTTAGAGTTTAAATCCCTAGCACCATTGTTATGGTGGAGCTATAAACATCATTACTTTGTGATTAAATTGATTCTAAACCTATAGTTTTGTGATAATTTAGTTACTAAATATGTAGTTTTGTGACACTTCATCTTAAATGTGTAGTTTTGTGATAAATTTGGTGTTAAATGTGTAGTTTTGTGATACATCGAGTTAAATCTGTAGTTTTGTGATAATTTGGTCATAGTATCTGTAGTTTTGTGAAATTTACTCAAAAAAAAAATCCTACATTCTAACAACACTCCAGCGGTCCCGCCTATCTTTTGCATGGAGAAATTTAAGCAGATTTTTCTTTGATGGGATTTGAAGAAGGAATCAAGAGCAACATTGGATGGTTACTCGATTTGATCAGTTAGGTCAGCTAAACTAAATGCATTTCCCTTATTACTTGGTTCTTCTATCGAATTTGAGCGAAATACTGGGGTCAATCTTGATTTGGTAACTCTCATTGCATTTGACAGGGAATTAAACAGCTCCAAATCAAGTGATTTCTCTTTCTAAGCACACAATTCCTGCCAAGCGCAACTCTAGCCTATGTATTTGTTCACCCGTTGTCACGATCGTGCGGGATTTATTCCACCAGAGGAAGATCACTACACCCCCCAATAGAATGCCATGGAGACCAACCTGGCTGGCGGCAATCACGGGGCTGGACGAGGACGCGACGGCCCAGGCCGCGAGGACGCCGCACGCAAGCCCGCCCACCGCCTTGCGCTCACCGGCAAACAGCCCCGCCGCCTCCGGCCCGCCGCCACCCCCGGCCGAGCACGCCACCACCCGCCCCGCCCTCGGCGTCACCCGCACCCGCAGCCGGGGCGCCGCCGCCGCCGTGGCCGGCGAGGCGAGGCAGGAAGAGGTGGAGGCCATGTCCGTGCGGCCGCGACAAGTGAGGGTGGCTGCGCTGCGGCGAAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGCTGGTGTGTG

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.849474
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa10LNT0076100.1 10 19148247 C G
Osa10LNT0076100.1 10 19149138 A G
Osa10LNT0076100.1 10 19150709 T G
Osa10LNT0076100.1 10 19150801 A G
Osa10LNT0076100.1 10 19149961 C T
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
Osa10LNT0076100.1 DTM_#DNAt_MULE_japo_Os0086 Chr10 - 19149715 19150142 427
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa10LNT0076100.1 osa-miR5542 Cleavage 5.0 12.713 1 21
Osa10LNT0076100.1 osa-miR5835 Cleavage 5.0 13.103 1 24
Osa10LNT0076100.1 osa-miR156b-3p Cleavage 4.5 2.061 1 21
Osa10LNT0076100.1 osa-miR160c-3p Cleavage 5.0 23.314 1 21
Osa10LNT0076100.1 osa-miR162a Cleavage 4.5 14.743 1 21
Osa10LNT0076100.1 osa-miR162b Cleavage 5.0 14.743 1 21
Osa10LNT0076100.1 osa-miR169i-5p.2 Translation 4.5 6.777 1 22
Osa10LNT0076100.1 osa-miR2101-5p Translation 4.5 13.897 1 22
Osa10LNT0076100.1 osa-miR2122 Cleavage 5.0 20.921 1 22
Osa10LNT0076100.1 osa-miR2867-3p Cleavage 4.5 16.661 1 20
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa10LNT0076100.1 10 ssd10 Morphological trait Panicle/flower RG257 RZ583
Osa10LNT0076100.1 10 nan Physiological trait Sterility C701 C16
Osa10LNT0076100.1 10 nan Resistance or Tolerance Drought tolerance RZ892 BCD386
Osa10LNT0076100.1 10 qRf-10-2 Physiological trait Sterility RM258 RZ811
Osa10LNT0076100.1 10 Rf Physiological trait Sterility 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