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

>Osa10LNT0063700.2

AAAAACGTCACAGCCACGCCATTCTTATATTCTTATTTTCAATGTGATCTTGGCACCATGTTACAAGATGGAAGACAAATTCATCTGCAAAAGCAGCTGAAGATCTATATCCTGATATGCGTTTGTGCAATCTGATGCACACAAGTGTCTATGTATGATATATAAATTTCCTGTAAACAAAGAAACTCTTTACATATTTTATCAAGCTGAACTATTTTCTGGGTGGTTTCTAAGATTTTTCTCTTGCCCTTGCTTGATGGTACGCAAAAATTGATCCACGAGAAAGGAAGGTCAATCATGGATTACTCAAGAGAAAGGTTTCTGATGTTGCGCTGCTGATCTGCAATTCCTTTGGCTAATCGTGACGGCAGAGGAAGCAAGTCAGCTGGTGTTCCAGTGGAGGATGTGCTCGTCAATTTCGGATTGAACCACCTTCTTAGAGTAAGCCCGTTGATCCTCATTTTTCCATGAGACTCCTCGCCATGATATTTGATTCCTAATCTCCTCAGCAGGGAACCAACTGCTTGACCGACTCTTCCAGCAAGTTTAAGTGTCTTCTCCCTTTCATCAAGGCCGACTTGTTTCTTTTCTGTGGGTAATAATATTGTCACGTTGGGTAACCTTGCGCCTGCAGCTAGTCGATGCTTTAAAGACCTCAATGTTGTAAGAACTGAAACCTCCGCAGTGTAGATCTTTGACTTTCGGGCATCAACAAGAATACGGGTATCTTTCATGGAAATACTTTCAACTGCTCCTAACGAAGCAGCTTCCTCCAGTATTGAAAAGGCACGAATGTCGTATTCACCAAAACCTTCCAACAGTGAATTCACATTGGGATGATGTGGAATATCACAACTTATTCCCATATTTTCAATGAAAGTATTTGTTAATGTATTATCATGAGGAAACCTTAAACATCCCAACACTTGAGACAAAACATCACTTGAGGGTAATAGTCCTGTGGAAATTGCCTCACGGTAGACCTTAATTGCTGAGGAGGTCCATTTGTTCTCAATCTGTGGTTTCCCTAAGTTGAATGTGACAACGATATTGCCCAGTGAAAGATCATTGTCGAACATTTGTAGACACAAGCCAGTAAGACAACCAACGATTGTGGGATTGAGGTCAATACTGTCTATTTTTAATTGTTCAAATAGATCCAAACCCAGTTGTGCTTCAGCATTCCTTTCACAAGCCACAAATAACACCGAATAGGTTATCATATTTGGACAGACTCCTAATCTCTTCATCTCACTAAGGACCTCAAAAGACTTCAAAACTTGATCACCATCACACAATGCGGTGATCAGAGCATTCATCATTGAAACGGTTGGCATTAATTTGATTGACTTGATCTCCTCAAATAGCTGCAATGCCTTTTTCCAGTCCTTGGCATTGCAGCAAGCACCCATTAATGAACTGTATGCAATGGTTCCAACTTGATATCCCTTTGCTCTTGCATCTTTCATTATCTCAAAGGCAGCATCAGCCCTCCTAGCATGGCCAGCAACATCAACTAGAGCACTCAGAAACATCTCATCAGGTTGTACTCCAATCTTGTTCATATCTTCATAGATCTTCAGAGCAAATCCTAAATCACCAGTCAAGCTACAGCTTCTCAATGCTATTGTGTAAACTTCTGGAGTACCCTTTATATTGTACTCCTGAAGCATTTTGTATACCTCACGAGCTCGATCAGCCTGGCCAGCCTGAATACATGTCTTCATCAGAGCTCCAACTGTGACATGATCAGGAAGAATCGGTTTGGATCCTTTAGATTCAGAGGCTTCTGCTGTCATTTCTGATAGAACATCAAAAGCTCGAGCAACCGCTCCAGATTCACCGCATGCACTGATCAAAGCATTAAAGACAACTCGATCTGGCTTCACCTTCTTTGAACTCATGATACCATAAGCACCAAATGCTTTTGCTACTTGACCAGCTTTTGCACAGCCATCAATCAGTGCACTATATGTGTTAACATTTGGCTCTATTCCAGCACTGACCATCTCATGGAAGACCTCAAACATAGCATCAACTTTTCCACACTTGGCACAAGTCGATATAAGTGTTGTGTAAAGTTTACAATCAGGTTTTAGCCCAGCTTCCTTTAGGAGCACCATAACTTGGAGAGCCCCATCAAAATCTTGCGAATTAGCGCACACAGATAAAAGCATATTGAAGGTACTCATTTTTGGGTTATTGATCAACTTGCAAAAACGAACAGCTTCCGGAACAGCCCTTTGCTTCTTACAGGCATTCAGAAAGCTAGCATGGTGGATCTTATTCATATCAAGCAATCCCTTTTGCTCCATGCTTTCCAATAGATCCACAGAGTCTTTCAATCTTCCATCAATTAACAAACTATTGTATCTCCTCAAGTAATCTGGCACGTCCTTTGTTCCCCTCAATCCAGCTCTATTTGCTGAAGTAGAGTTTTCTGGATTCTCCTTGCTCAGTAAATTAGAAATACTCCAGCCAATTAACTTTGCATCATCATGGTCATTCATTGCTTTCTTTTGTTTACTCACAGGACCATCCCTTAAGCATGCAACTGGAACCAATCGCCCTGAATATAGAGCATGCTTCTGCTCTCAAATATGAGCCCCCTGCATAAGAATTTGTGAACTCGGATGCTTTTCTTGGTTCAAACAGATTGCTGGCATGGGCTTCAGGAATAAAATTCAGTGGATGCTCGTTGATTCTTTTGAAGGATGAAAGAGACGTAAAATCAACATAGTCTCCTTGATCACTTTGATGGCATCCAAGTAAATTGGCACCCTCACTATCTGTTTTATTATCAGGAGGACCTTGGCCATTTTTAGTCTGCTCGTTCTGTTTTGAAAGTGATAAAAACTGATGAGGCAGTCCACCTAGCTGAGCCCTTCTGTTAGCAAAATGTCTGCTTTGATGTTGTCCATCAGACACAGAACGCGATTGTGGGAGAATATCTTGGACCTTTTCTATGGAACTTGTGTTTGCTGGTCCATAAACACCTTCAAATGTGTCTAACGACCTGTAAGTACTAATTACAGAACCAACCTGTGTTGTATTATTTACAGTATCTACACCAGAAAAAACATCAGTTTGGCAATCCGTTCTATCCACAGTCATTCTTCCAGAAACAGATGGCTCTGAAAAGACATTTTCATGAGTTCTTCGAGATGAATAGCTACTGTCATCTAACAAGTCTGTCGATGTGCCAAGGGCCTTATTATTTACGATTCTTTTGTCATGTTCATGTGAAACCTGCATGATTGCGATATCTCCACAAGTTAGAAAGAAATTGATTTTTTTGTATTAAATCATGTTCCCTTTTTTTTTTTTGCTAAAAGTGCATCGTCAGCTGCCATTTTCCATGCCCAACTGAAAAATAAGACACTTTTTCATCTTGCAAGAAATGAGAAAGACTGTGCTTGATATTGGATATGACAAGCGATTATGATAAAAGTATAAATAAGGCAATGATGATTTTTGAACCTTAACAAGTATTGTCTCACAATGGACACCAGTTTAGTTGATTTTCCCAAATTTGTCAATTTAGTAGCTACCAACTGACCGCGTAAACTCACACAGATTTAGCTCATCTGTAGACAAAACCAGAATAAGGTTTTTCTATCCTGATTTATTTCTTGCATTAGACAAATATGTGGAAACTAGTAGGCATGACTTGTACTGGCCGTTTACAGTTCTGTCCATTCATAATTTACATTCCTTGATTAATACAGTTTTCTTTTATCACATTTACAGAGGTAGTAGATGATTTCTTGGAAGAATGGAGAATTCCGTTTCAGTGAGATTAAAACAGAATTCTTCAACTATGACCTGTAGGGCCGCATTCCATTTGACCCAAAAAGAAAAATGATCCGTTTTATTTTTCAAATCCGTAATCACTCAGAAAGCATATGCTGACCTCCTCCTCCTCGGGAGAATCCCCGCCGCGCCACCGTAGCCAGACAAGC

Coding Potentia
Explanation CPC Score
noncoding -1.29498
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa10LNT0063700.2 10 5578586 T A
Osa10LNT0063700.2 10 5578916 G T
Osa10LNT0063700.2 10 5577587 A T
Osa10LNT0063700.2 10 5577600 G T
Osa10LNT0063700.2 10 5577626 C T
Osa10LNT0063700.2 10 5577815 T C
Osa10LNT0063700.2 10 5578226 C T
Osa10LNT0063700.2 10 5578462 A C
Osa10LNT0063700.2 10 5578644 G A
Osa10LNT0063700.2 10 5578653 A G
Osa10LNT0063700.2 10 5578732 C T
Osa10LNT0063700.2 10 5579016 A G
Osa10LNT0063700.2 10 5579161 A G
Osa10LNT0063700.2 10 5579535 C T
Osa10LNT0063700.2 10 5579609 A G
Osa10LNT0063700.2 10 5579686 A G
Osa10LNT0063700.2 10 5580943 A G
Osa10LNT0063700.2 10 5581028 T C
Osa10LNT0063700.2 10 5581233 A G
Osa10LNT0063700.2 10 5583137 C T
Osa10LNT0063700.2 10 5583349 C T
Osa10LNT0063700.2 10 5583363 T C
Osa10LNT0063700.2 10 5583537 A G
Osa10LNT0063700.2 10 5583662 A C
Osa10LNT0063700.2 10 5584875 T C
Osa10LNT0063700.2 10 5584932 A G
Osa10LNT0063700.2 10 5586259 C A
Osa10LNT0063700.2 10 5585502 A G
Osa10LNT0063700.2 10 5585674 G A
Osa10LNT0063700.2 10 5581260 G C
Osa10LNT0063700.2 10 5581306 G A
Osa10LNT0063700.2 10 5581426 T C
Osa10LNT0063700.2 10 5581516 A T
Osa10LNT0063700.2 10 5582162 A G
Osa10LNT0063700.2 10 5582841 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
Osa10LNT0063700.2 osa-miR5828 Translation 5.0 11.703 1 21
Osa10LNT0063700.2 osa-miR815a Cleavage 4.0 18.614 1 21
Osa10LNT0063700.2 osa-miR815b Cleavage 4.0 18.614 1 21
Osa10LNT0063700.2 osa-miR815c Cleavage 4.0 18.614 1 21
Osa10LNT0063700.2 osa-miR1428a-3p Cleavage 5.0 12.347 1 21
Osa10LNT0063700.2 osa-miR2055 Cleavage 4.5 12.429 1 21
Osa10LNT0063700.2 osa-miR2870 Cleavage 5.0 14.797 1 21
Osa10LNT0063700.2 osa-miR5522 Translation 4.0 19.93 1 21
Osa10LNT0063700.2 osa-miR5814 Translation 5.0 13.967 1 24
Osa10LNT0063700.2 osa-miR1439 Cleavage 3.5 17.17 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa10LNT0063700.2 10 qRRE-10 Resistance or Tolerance Other soil stress tolerance R2174 R2194
Osa10LNT0063700.2 10 qPBN-10 Morphological trait Panicle/flower RM216 RM311
Osa10LNT0063700.2 10 nan Physiological trait Sterility C701 C16
Osa10LNT0063700.2 10 nan Physiological trait Sterility R2309 RG257
Osa10LNT0063700.2 10 nan Resistance or Tolerance Other stress resistance R1933 R1629
Osa10LNT0063700.2 10 nan Resistance or Tolerance Other stress resistance R1933 R1629
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
Osa10LNT0063700.2 10 5583137 Lemma-and-palea-pubescence 8.363110542 -