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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 Rf Physiological trait Sterility nan nan
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 ssd10 Morphological trait Panicle/flower RG257 RZ583
Osa10LNT0076100.1 10 nan Physiological trait Sterility C701 C16
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