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

>Osa11LNT0109800.1

TAAATATAGTCCGATGCAGGGATGAAACGAAAGGCGCCATGCCTTGCTGTGTTCTTTCGCTGGGAGCATAGTATGTCCTTAAATCAAACTTGGTCTGAGGTAGGAGTACTTGCCAGCAACCTTTCCTCCCTGATATTTATTTTCCAGAGTCGCACAGATATGCAGCTGTTTCGCACATCACAGGCTCACAGCACTCCAATAGCAAAGACACTCGTGCGCCGAGATGCAATAAGGTCGCCAGGACACTGAAATAACCATGAATAGAAAATGCCGGTAGTACTTCATCATTGGAGCGCCACATCACTAAACATTTCATTCCCCTCTTTTAGAAGCACATAAGAATTATAAGTTACATTGAATGATTGTTCCTAGTTTAATCGACCTTATAATACTTGCGAGAAATTAAGAATCGAAGTGGGACGAAAATATGCACCGGTTTAGGATACAGCAGCATGCATATCTTCTGCTGGATTCACTATATGGCCGCTGTTGAAAGACCATATTGCTTGGGGATTATGCTTGCTCCCCTGGACCACTGGCATTTAGCAGCGGGGTCAACTGCTGTTGCGCCTCCCACCGGTGTCACCGCCGGCCTACACCGCGCAACCGGCGCGTCGATCCCCAGACGGAGAAGCCAATGTGGCCCCTTCAGTGTGTGGCAACACGGGGGCCATAGAGTTCCTGAAATGACCAGCCTTTGTAGACTTCCACATTTTGGCCCTCTGGGGTTGTGTACTTCCGCAGTTCCACACAGTTCACTGACAATTATATCATGTATTTGTGAACTGAAACTCGGTTTCTTCGATTAAGCTCTGCCCTGGAGCCTTTTGCACACTCATCCTCCTCATCAGTCTCCTCGCATCCCCTGCCTCCTCCCATCGTCCTGTTTCCGCATAAAGATTGGCCAACAGGACATAGTTCCCTGAGTTCCATGGTTCAAGGTTAATAAGTTCTTTCAGTGCCACCTCAGCTATGCTAATCCCAGAATGAGCATGGCATGCGCTTAGCAGTGCACCCCATATCGCAGCATTAGGTCTCATTGGCATCCCTTGAATCAATGCATATGCCTCCTCAAGAAGGCCAGATCTTCCAAATAAATCTACCATACAACCATAATGCTCAATTACTGGCTCAATACCATGCTCTAGCTGCATGCTCTGGAAGATGTCCCTCCCAACATCCACAGCCCCAGCATGCGCACAGCAGCCAAGCACCCCCAGAAATGTCACTTCATTGGGCATCTCACCGTGTGTCCTCATCTCTCGGTAAAGCTCAATGCCCTCAATCCCATGGCCATTCAATGAAAATCCTGAAATCATGGTGTTCCAGCTCACCACACTCCGCTGTCGCATTCCCTTGAATACCTCCCTTGCACTATGAACATCACCACACTTGCAATACATATCCATCACTGCATTTGCAACATGTACTTTCCTGTCTAGCAACCCACTCTTACGTGCATGCTCATGTGCCCATCTCCCCACCCCGACATTCCCCAACCTCCCACAGACCGGCAGCACAGCAGCAAGGGTCCCATCATCCGGTGCCACCTCCCCCTCCCTGACCATCCTCTCAAAGCACAAGACCGCAATGTCATCCTTCTTGCACCAAGCACACCCCGCGATCATAACATTCCAAGAAACCACGCTCCTCCTGGAGCGCCTGTATCTCTGCATTTCGTCGAACAGGTGGCGTGCGGCACCAAGATCATCAGCTCGGAAACAGGCCGTGATGAGTGTGTTGTAGGCGACGGTGCACTTGTTCCTCTGCGTCATTTCGTCAAACAGGACGCGGGCGTAGTGGAGAGGATATGGCTTGAGGAGCGCGAGAGAGATGGCGTGATGTGAAAGGAAACCGAGGCGGAGAAGAAGCGCGTGGACTGCGGAGAGGAGAGAAAGGGACGATACGCAACCTAGGAGGGGCAGGAACGAGAGGCGGTCGGGCGCGTGGAGGCGGCGGAGAGAGGAGAGGAGCCGGAACGCGAGCGGCGGCGAGGAGGCCGAGAGGGCCTTGATGGCGGCGTTGAGGAGAGGCAGCGGAGGCGGCGCGTGAGGCGGGACGAGGCGGAGGAGCGGGAGAGCCGGCGGCGGCGGGGAGGAGAGGAGCAGCAGCGCGGCGAGGGAGTGGTGGTGCGGGGACGGCGGCGACGACGGGAGGCAGTGTCGGACGGCGAAGGCGAGGAGCTCGAGCGGCCGCCGCCGCGCGGGAGGGGAGTGGTGCAGGAGGTGGAGGAGGCGCCGCTCCGCCGTGCGCGGGTGCCACCCGTCCGGCGTCGTCACCGCGGCGGACAGCGCCGGCGGCTCGCCGTCGCCGGCCATCGGCGGCGCGCGGCGGAGGTCTGAACCGCGCGGCCACGTTT

Coding Potentia
Explanation CPC Score
noncoding -1.06726
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa11LNT0109800.1 11 27194513 G A
Osa11LNT0109800.1 11 27194033 T A
Osa11LNT0109800.1 11 27194281 C T
Osa11LNT0109800.1 11 27194343 C T
Osa11LNT0109800.1 11 27194431 T A
Osa11LNT0109800.1 11 27194441 G T
Osa11LNT0109800.1 11 27194762 A T
Osa11LNT0109800.1 11 27194850 T C
Osa11LNT0109800.1 11 27194982 C A
Osa11LNT0109800.1 11 27195062 T A
Osa11LNT0109800.1 11 27195202 T A
Osa11LNT0109800.1 11 27195527 A T
Osa11LNT0109800.1 11 27195559 T C
Osa11LNT0109800.1 11 27195639 C T
Osa11LNT0109800.1 11 27195701 G C
Osa11LNT0109800.1 11 27196075 G A
Osa11LNT0109800.1 11 27196257 C T
Osa11LNT0109800.1 11 27196276 T C
Osa11LNT0109800.1 11 27196318 A C
Osa11LNT0109800.1 11 27196430 G C
Osa11LNT0109800.1 11 27196498 A T
Osa11LNT0109800.1 11 27196548 T A
Osa11LNT0109800.1 11 27196620 G A
Osa11LNT0109800.1 11 27196768 T C
Osa11LNT0109800.1 11 27197029 T C
Osa11LNT0109800.1 11 27197178 A G
Osa11LNT0109800.1 11 27198017 G T
Osa11LNT0109800.1 11 27198135 T C
Osa11LNT0109800.1 11 27198237 T C
Osa11LNT0109800.1 11 27198529 A G
Osa11LNT0109800.1 11 27198884 A T
Osa11LNT0109800.1 11 27199239 C T
Osa11LNT0109800.1 11 27199558 A G
Osa11LNT0109800.1 11 27199644 A G
Osa11LNT0109800.1 11 27199666 A C
Osa11LNT0109800.1 11 27199719 A G
Osa11LNT0109800.1 11 27199774 G T
Osa11LNT0109800.1 11 27199503 C G
Osa11LNT0109800.1 11 27197928 C T
Osa11LNT0109800.1 11 27198705 G A
Osa11LNT0109800.1 11 27199390 A G
Osa11LNT0109800.1 11 27197224 T C
Osa11LNT0109800.1 11 27197424 C T
Osa11LNT0109800.1 11 27197505 T C
Osa11LNT0109800.1 11 27197684 G A
Osa11LNT0109800.1 11 27197689 A G
Osa11LNT0109800.1 11 27197880 G A
Osa11LNT0109800.1 11 27197883 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
Osa11LNT0109800.1 osa-miR5530 Translation 4.5 13.282 1 21
Osa11LNT0109800.1 osa-miR5820 Translation 3.0 19.99 1 21
Osa11LNT0109800.1 osa-miR166a-3p Translation 5.0 19.48 1 21
Osa11LNT0109800.1 osa-miR166b-3p Translation 5.0 19.48 1 21
Osa11LNT0109800.1 osa-miR166c-3p Translation 5.0 19.48 1 21
Osa11LNT0109800.1 osa-miR166d-3p Translation 5.0 19.48 1 21
Osa11LNT0109800.1 osa-miR166f Translation 5.0 19.48 1 21
Osa11LNT0109800.1 osa-miR166j-3p Translation 5.0 19.48 1 21
Osa11LNT0109800.1 osa-miR390-3p Translation 4.0 14.089 1 20
Osa11LNT0109800.1 osa-miR535-3p Cleavage 5.0 24.688 1 21
Osa11LNT0109800.1 osa-miR815a Cleavage 4.0 8.36 1 21
Osa11LNT0109800.1 osa-miR815a Cleavage 4.5 12.116 1 21
Osa11LNT0109800.1 osa-miR815b Cleavage 4.0 8.36 1 21
Osa11LNT0109800.1 osa-miR815b Cleavage 4.5 12.116 1 21
Osa11LNT0109800.1 osa-miR815c Cleavage 4.0 8.36 1 21
Osa11LNT0109800.1 osa-miR815c Cleavage 4.5 12.116 1 21
Osa11LNT0109800.1 osa-miR1861d Translation 4.5 14.946 1 22
Osa11LNT0109800.1 osa-miR1861d Translation 5.0 14.145 1 22
Osa11LNT0109800.1 osa-miR5487 Cleavage 4.5 16.932 1 21
Osa11LNT0109800.1 osa-miR5517 Cleavage 4.0 15.378 1 21
Osa11LNT0109800.1 osa-miR5521 Cleavage 4.5 13.103 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa11LNT0109800.1 11 FON3 Morphological trait Panicle/flower RM4601 RM1233
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