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RiceLncPedia: a curated knowledgebase of rice Long non-coding RNAs
Sequence

>Osa11LNT0082200.1

AGAAGCTCAAGGACAAATTCACCCAAAATTTGTTGCTCGGTGGCAAATCTAAACAAGTCATGCACAGCTTGCTTAACCTATCAACGAATATTAGAAATATAGCATTAGAAGAGTCCGTAATCCGTATGTGCTACCTCTACCTGAGACCTGGGCGCATGAGCAGCTCATCGAACGAAGCATTCTGCTCCAGGTCTTGTACGCTGCCTGTCGTGTTGACGGCTTCGGAGGGAGACGTCTTGGACATGAGGTGGTGAATGCTGGAGGGCAGCTCCCGTTGCAGCTCGATGGCAATGGCGTCCTGAATCTCCTTGAGCACCTCCGAGATGGACGGCCTCAGCACCCCCTTGGGCTTCACGCACATCGTCGCCACCTCCGCAATCTTCCACACTGACTGCAGGTCGTACCCTGCGTCTAACGACTGATCAATGATGCCGTGGATATCCCCACTCTCCATGTGCGATCTAGCCCATTCAACAATGTTACGGCAGTGGAGCCCAAAGTTGTCATTTGAGATTGGCTCATGGCCTGAGATTAGCTCAAGTAAAATGACACCAAAACTGTACATATCACTCTTCTCTGTTAGCTGCTGCGAGATATAGTACTCTGGGTCCAGATATCCAACTGTTCCTCTAACTATACTTGATACATGAGACCCGTCGACAACAGGTTTTGACAAGCCAAAGTCTGCAACTTTTGCTCTCATGTTCTTGTCAAGGAGAATGTTACTGCTCTTGAGGTCTCTGTGGATGATAGTTGGGGAGCATCCTGTGTGGAGATACTCTATTCCTTTTGCAGCATCTTCTGCTATCTCAAGACGCTTGACCCAGCTAGTTATTTTTACATCATCAGGGCCTCCACGGAGGTGCTCTTTTAACGTCCCGTTATGCATGAATTCATACACAAGTATATTTTTACCATCTTGCTGGCTGTAACCAAGGAAGCTCACCAGGTTTCTATGATGAATTCTTGAAAGCAATGTTACCTCATTCAAGAATTCTCGGATGCCTTGATAGGAGTCATTTGTGAGAAGTTTGACTGCGATTTCTCTCCCATCTGTAAGCTTTCCATAGTATACTATGCCAAACCCTCCCGAACCAATTCTTCTGTCAAATTTGTCAGTAGCATCTTCAATTTCAGACAATGCAAATCTGTGCGCCGATTCCGTGGCCACTTCACTGAAAAATGAGCCTAGCTTTTTTGCTGGTGCCGCAATAACAACAGTTTCGTCCGATGATTTCTTCTTCCTTTTGCATGTGAACAGGTAACAAACAATAGCAGCAACAAGAATCAAAATGGCCCCAACCACAGCACATACAATAATTACTATAGTGCGGCCAGTGTTACTGTGTCCCATGCGAAGGTCACTGTTTCCTGAGAAGTTGAAAATAATGCTCTTTTTGAAAAGCGCTTGTGGGACCTCTCCAGACAGCTTATTGTTCTGAATATACAACTCTTTCAGGTTAGGTAGTTCTCCCAAGGAAGGTGGCAATGCACCGGTTAATTGGTTGTCCTCAAGGTGAATATATTGCAAATCATGGCATCCAGTGAAATCAGGAATTTGACCAGTAAATGAGTTACCATCAAGCTTTAGTTCAACCAGCCCCGATAGCTTCGTTAATTCCACAGGGATACTCCCTGTAATGTTCTTCCCTGACAATGAGATTGAAAATATCCTAGGTGCTGCCTCAGAACTGCATTGCACCCAAGACCATGATGCTGGTAAGCAAGGGTCACCACCCTCTTGTGCCCAACCTGCTTCTGGATACCGTGAGACCAAGCTGGCCATAATGTTTGCATCTTGAGATCCCACAGAAATCTCTATATATTTGTAGATCTCCATGGCATTCAATATAGGTCCCTCTGACGAATCATTAGTCTTCTTGAATCCAAAAGAGAAAACAAATGGAAGTGGAATATTTGTGTAGCCTGGTTCATATAGACAATACTTTCCCTGAGCATTCTCTTCCACATCAACAGTTGGTTTACTGAATTCTGGCTTGCCTGGAATGACTAACTTAAATTTCCTAGTTTGATTTGGGGCCAAATCTTCAATTTCTGCAAAATATGAGACTCCCCATGCATTTCCTGGGAAATCTTCCAAATCAATCCGGTAGGTCAAGGATCCATTTTTGCCAACAACTGCAGTTTGCATGACCCTTTGAGGTGGTTCTTCGTTGGTACTGACGAATATGGGTTTTGTAGTTGATATTCTCTCCGTCCCCGGAGCAACATCGACAAGGTAATTTGCTCGCCTCACTAAATCAGACTCCCATATTCTATCAAATGGATCATCAGGATACCTGACTGATGCATTGCTTTCAGCACCAAAATTGATCCTTGCAGAGAGTCTAAGAAAGAACTGTTTTTCATCAGTGGTGTAGTAAAGGGAACCGTTAAATTGGCGAAGCTCGAGAGTAGAAATAAAGGGCTGTCCAGTGCTGGCATTAGAGAGGCAAACGCTGAGTGTTGGAGCAGCAGCGAGGATAATCGCCTCCTGGACGACTGGGGTGGTGGCATCATCAATGACAACGGTGGTCCATGGGGTCGGTCCAAGGGAGAGATCAAACTTTGGGTAGACATTGCTGTTGTCGAAGTTGCCGTAGAGGAAGGTTGCTCTAACAAGGTAACGTGTTCTGTTCCTGACATTCATGGTGTAGCAATACTTCCTGTTATCTGCTGGAAAAGAGCGAACGGTGGTATATTGCTGCAATTGTTGATTTTGGAGCAAGAGGTTCGCTTCCTGGCCAGCAGAGACAAACTTGGCATCAGAAGTCCACTGGATCCCAATGCCATCCGTGTAATCATCGTCTCCCCCACAATCCAAGCTGATGAAACCAGGCTGAGCATTGGAGAGCGAGAAGGCGAGGAAGAGGAGCACAAGAGCGGCGGCGGCGGCGGAAGCAGACGGCATCTGTATTGATGATGGATTGATTAGCACAGCCGCGGGTGCGGGCTGGTGAATCAATCCATATGCTCCCTCCTTGGAACAAGTCCTAAAACAATAAGGAAAATGATTGAAATTTTGTTGGTAGTTGGGGCTGGGAGAGGGGCAATCACCAATTCTCTCTCTCTCACACACAGGCAAGAAAGAGCTCAACCAGAAACAGCAAGGGGAGTGAAGAGAATACCAAACCAAGCACTAGCACGCACCTTGTAATTGTAGGAGTATTCCAAGAAGAAGAAGAAGAAGAGCAGGAGGAAGGGGAAAGAAGAAGACAGGAGGGTCCCAATCCCAGTCTCCTGCTCTCACTCACAGCCAGCCTCTGCACCC

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.187384
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa11LNT0082200.1 11 118927 A G
Osa11LNT0082200.1 11 118985 G A
Osa11LNT0082200.1 11 122808 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
Osa11LNT0082200.1 osa-miR5530 Cleavage 5.0 15.243 1 21
Osa11LNT0082200.1 osa-miR5544 Cleavage 4.5 16.408 1 22
Osa11LNT0082200.1 osa-miR5820 Translation 5.0 14.056 1 21
Osa11LNT0082200.1 osa-miR7694-3p Translation 4.5 21.832 1 22
Osa11LNT0082200.1 osa-miR156a Cleavage 5.0 12.233 1 20
Osa11LNT0082200.1 osa-miR156b-5p Cleavage 5.0 12.233 1 20
Osa11LNT0082200.1 osa-miR156c-5p Cleavage 5.0 12.233 1 20
Osa11LNT0082200.1 osa-miR156d Cleavage 5.0 12.233 1 20
Osa11LNT0082200.1 osa-miR156e Cleavage 5.0 12.233 1 20
Osa11LNT0082200.1 osa-miR156f-5p Cleavage 5.0 12.233 1 20
Osa11LNT0082200.1 osa-miR156g-5p Cleavage 5.0 12.233 1 20
Osa11LNT0082200.1 osa-miR156h-5p Cleavage 5.0 12.233 1 20
Osa11LNT0082200.1 osa-miR156i Cleavage 5.0 12.233 1 20
Osa11LNT0082200.1 osa-miR156j-5p Cleavage 5.0 12.233 1 20
Osa11LNT0082200.1 osa-miR399a Cleavage 5.0 20.224 1 21
Osa11LNT0082200.1 osa-miR399b Cleavage 5.0 20.224 1 21
Osa11LNT0082200.1 osa-miR399c Cleavage 5.0 20.224 1 21
Osa11LNT0082200.1 osa-miR399i Cleavage 5.0 20.224 1 21
Osa11LNT0082200.1 osa-miR1430 Translation 3.5 15.532 1 21
Osa11LNT0082200.1 osa-miR1430 Cleavage 4.5 20.872 1 21
Osa11LNT0082200.1 osa-miR1847.1 Cleavage 4.5 17.13 1 21
Osa11LNT0082200.1 osa-miR2932 Translation 5.0 24.456 1 19
Osa11LNT0082200.1 osa-miR5488 Cleavage 4.5 11.882 1 21
Osa11LNT0082200.1 osa-miR2122 Translation 5.0 18.346 1 22
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
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