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

>Osa08LNT0411900.2

GGGATTTCTTTCTAGAGAACACAGCTCCACAGCCTGATTGTACCGGGGAAAAAATTGAAGCCGGACAGATACAGAGGTAAATATTAACAGGGAGGGGAAAAATGTAGAAAGGTGAGCCGATACGGTGAACATATCATATAAATTTTTTTCCCAACATGAAATTTTAAAAGTTATTAAAGACAATGGAATTGCACCGTAGCGTTTAGCACGGGCATATTACTAGTATACATAGTGCTAAAACGTATAACAGGCAAGCACCAGGTATTTGACAAAGAACATGGCATATGCAGGAAAGTGTAGTTACTTTATACCTGGTATGAAATTGTAATAATATGCTAATCAAATACGTTGGCACGCCATGTTCTTTGTCAACTGAAATTGTAATCATGAGTGCCCTTTGGGTGCTAAAGATCATGAGAAGCAGATGGGTAACTAGCTAATAAAAATCTTGCTCAGAAAAAGATATGCAATACTACTTCCTTGTCAAATGCCATCACCACTAGCACGTTCTGTTCAATCCTGTCAATTCAGCCGTTCCATGGATTCATGAACTCTGATAGTAGGGAAAAAGGGCAATTCGACTGATTACGTTGGAAGATGAACAGAACCGCTCATGTCGTCACCGAGAGTTTACATGGCAAGGCAGTGGGAAAATGTAGTACCCAAGAAAGGGCCCAAATCAATTTATACCAGAGTTGCCAATCAAGTTGTGATAGCGCCACTGGAGGTATCGTCAGGTTTGCCCATGCACTCAGCACTTGTCGACGCCATTGTGCAAAGGGCTCTTCTGCCCCATAAGTTTCCAAATGCCAGCATTGCCGATTTTGGTCCGAGCAAGGATCAGACGTCCAGAGCGGTAGTGCTTGCCGCCTTGCTGGAGAACTGAGGGATTGTTTGTCTGATCCTGGTTACCTTCGCAACCCTTGTTATGGAGGAATTGTTACCGTGGTCGGCAAAGGCTTGTTCGCTGCAATTTGTTGATGCCAAAGAGAGCTTCAGTTCTTGCAATTTTCCGCAGGTCGCAAGCTTACAAAGGTAGTCACGGAAATTTGTCAATACACGCTTCTCTTGCTCTTTGAAAATGTCTACCAGATTCTCTTCTGTGGTTGAGGGGGTTGCATCTGGAGCTTTTGAATCCTGGAAAACTGCATCTTGCTCATCACACATCAGTGCCTGGGTTCCAGGAGACAGAGGCCTCTTGTTACCCTTCTGTATATCAAAAGGGTCGGCTCTTGGCAATTCCAGCCTACCTTCAGCAATAAGAACTTCGTTTGAGCTCTTCTCCAGTGAACACATTTGTTTAGCTGGTTCTTTCTGAATTGCTTCTCTATCATGGTTTGTGGAAGAAAGGCAACTATCTACTCGATTTAACTTTTTTCTCTTGGTGTTTTCCTTCATTCCTGACTCTAAAAGTGTTGCGCCAGCTTGTCTTGACACTAGAATTAAAAGATTACAGAGCTCATTTACATCTTCTATCTGGATGATGTCTGCTAAACTTGGCCTGTAAGTAACTTCATGTGGTACATATTTTACGAGACTTTTAGCATCTTCTCTAGTAACAGAAGAAGTGAGTGAACACGAAAGAGCCTGAAATGGAGATGTGAAGTGTTGTTGTTAATGGAATGATCGCTCACAGATGCAGCCAATGAAAGACTGGAGTCATTTTCTGCTGCATGGAAAATTATCACAGATTGTCCAACCATCCCACTTGAAGCAGGATTCTGCACATGATGCGCATGAACAGTGTTCTTCTGGGAAATTCTATCTGCATTACTCTTGTAATTCTTGCAACCCGTACATCTGCAGTTCTCTGAACAGAAAACACTAGCTTTGAAGCATTCACAGTATTTCTTCAGACACTCTGTTCTCTTGCATTTACACCCCTTTGTATGTTTACCCACAATATCACCCTCTGCTGCTTTGCTCTCACAGTTGTGGGCTGTGCTATTCAAAACTTTTGGCATAAAAGCTGCAGGATTCCGTTCCAATGCAACATTGATAGCATCCTGTCTTGCATTCTCATGATTAACATTGTTGCAACAGTTTGTGCAATTGCAACCAATGCAGTATCTGCCTTTTTCAAAGCACTCACAATACAGCTTCAGGCATTTCGAATACTTGCAGCTGCAGTTTGTTTTCCTTGTCAGTGTCACATCTTTTGTTTCAGACCACATTTCGCTAGATGGCTTTTGAGAACTCAGCATCACGTCAATAAAGGTTGCAGGCCTTGGCAACAATGGCCTCTCCATCTTCGGTGAATCTTGCTTCAGCGCTGGGGATACATGTTGCGGTGACCGCCGCACCTGCAACTTTGTGGGCTTTTCAACTGGCAATACCTCTAACTTTGGAAAATCTTGTGGCAGCATGGATGAAGACTGCTGCACTTGCAGCTTCTTGGCCGGAGGTGGGCTAGGCAATGACATAGGACGCTTCTGGGCAAATGTTGAAGGGCATATCACTGGAGGCCATAGTGGCAGTGATGAATTTACTTTTGCCAGTGGGAGCTGATAGCAGGGAGGTGTTCGGGGCGGCCCAAGCGCATGCAAGAGCGCTGCCGCGGTAGCAGCGATATCTGCCTTGCCAGCATACGAGGCAGAGGCAAAATCTATCTTCACTGACCCTGGACAAAGCTGTAACGGCTTCTCCATTTCCCACCACTTCCTAGATCCCACTCAGGATACCGCGGAAGCAGCCGGACAACCGACGCGCGCCCCTACTCGCTCGCGGGATGGATGGGGATCGGTGCAGGTGGTGGCGGCGGCGGCGGCGGACGAACTCACGAGGAGTCGGCGTCGCCGCCGAGAGGAAGAAGGGGAAACACCGCCGCACGACTATTTCCTTTTTTTCTTTTTTTAAACAC

Coding Potentia
Explanation CPC Score
noncoding -1.01095
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa08LNT0411900.2 8 17214874 T C
Osa08LNT0411900.2 8 17214705 T A
Osa08LNT0411900.2 8 17215309 T C
Osa08LNT0411900.2 8 17215382 G A
Osa08LNT0411900.2 8 17214764 T G
Osa08LNT0411900.2 8 17214048 A G
Osa08LNT0411900.2 8 17214145 T A
Osa08LNT0411900.2 8 17214184 T C
Osa08LNT0411900.2 8 17214508 G A
Osa08LNT0411900.2 8 17214587 A G
Osa08LNT0411900.2 8 17215071 T C
Osa08LNT0411900.2 8 17215135 A G
Osa08LNT0411900.2 8 17215721 G A
Osa08LNT0411900.2 8 17215901 T C
Osa08LNT0411900.2 8 17216045 A C
Osa08LNT0411900.2 8 17216090 A G
Osa08LNT0411900.2 8 17216266 C T
Osa08LNT0411900.2 8 17216311 T A
Osa08LNT0411900.2 8 17216760 A G
Osa08LNT0411900.2 8 17217397 T C
Osa08LNT0411900.2 8 17217413 T C
Osa08LNT0411900.2 8 17217594 G C
Osa08LNT0411900.2 8 17218333 T C
Osa08LNT0411900.2 8 17218622 A G
Osa08LNT0411900.2 8 17218667 A G
Osa08LNT0411900.2 8 17219447 A G
Osa08LNT0411900.2 8 17219961 A G
Osa08LNT0411900.2 8 17220095 G A
Osa08LNT0411900.2 8 17220498 C T
Osa08LNT0411900.2 8 17220500 T C
Osa08LNT0411900.2 8 17220525 A G
Osa08LNT0411900.2 8 17220708 G A
Osa08LNT0411900.2 8 17220804 C A
Osa08LNT0411900.2 8 17220996 T C
Osa08LNT0411900.2 8 17219456 A T
Osa08LNT0411900.2 8 17219552 A T
Osa08LNT0411900.2 8 17221026 C T
Osa08LNT0411900.2 8 17214017 G A
Osa08LNT0411900.2 8 17218917 A G
Osa08LNT0411900.2 8 17214121 T C
Osa08LNT0411900.2 8 17219731 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
Osa08LNT0411900.2 osa-miR166a-5p Cleavage 4.0 13.183 1 21
Osa08LNT0411900.2 osa-miR166e-5p Cleavage 4.0 13.183 1 21
Osa08LNT0411900.2 osa-miR408-5p Cleavage 3.5 8.678 1 21
Osa08LNT0411900.2 osa-miR1423-3p Translation 4.5 19.605 1 21
Osa08LNT0411900.2 osa-miR169r-3p Translation 4.5 12.229 1 21
Osa08LNT0411900.2 osa-miR1438 Cleavage 4.5 21.672 1 22
Osa08LNT0411900.2 osa-miR1875 Translation 5.0 9.411 1 24
Osa08LNT0411900.2 osa-miR2876-3p Translation 3.0 16.977 1 21
Osa08LNT0411900.2 osa-miR5144-3p Translation 4.0 19.65 1 21
Osa08LNT0411900.2 osa-miR5143b Cleavage 5.0 18.938 1 24
Osa08LNT0411900.2 osa-miR5143a Cleavage 5.0 18.938 1 24
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa08LNT0411900.2 8 hd8 Physiological trait Flowering RZ562 RG978
Osa08LNT0411900.2 8 dth8 Physiological trait Flowering RG333 RZ66
Osa08LNT0411900.2 8 qALRR-8 Resistance or Tolerance Other soil stress tolerance RG978 C1121
Osa08LNT0411900.2 8 qCRE-8 Resistance or Tolerance Other soil stress tolerance R727 C347
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