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

>Osa02LNT0142000.1

CAAAGTTCTCTTGATATAGTAAAAAGCAAGTTGTTCTTTCAAAGCCATTCGATCATCCGGATCAGTATCATTGCCGGATGACAAGAAAGATACCACCACTGAGTGTGAGGCACGTGTTACTTTCTCATTTGAATGCTGTATGTATCTGACAATTTTATGATAAGGACACTTTTTCTTAATATCGAAAATCTAGATAGCCAAGAACAAATTAAATATCAAGACAAAAAATAACAAACTGCAGTTTGAAAGGATACAAGAACATGATCGAAGCTAACTTGTCCTGAATCATGTGGGCTGGAATGAGGCTAATGCAAGTTGGTATAACCCGCAGATAAAACAATATGCGTGATGTCTGAACCACATCTCCGTGCCAGATATATCTTGTTCCATCCAAGGTTAATAAATCTGGTTTACTTGTCAATTCAGCATAAGAAGGAATTGACTCAATGAACAAAGCAGCAACTGCCGCATTTTCCTGATTGACAAGAACAGCACGCCGGACTGCCTCAGTGTACTCAGGAAGGCGCAAGCGTCGCAGATGTTCCAAACAAGAGAAGGACACCAAGATCTTAACAGCAACATCTGGTTGGAATCCCTCTGAGGACTTAGCATTCAACCTGTGCTTAGTGACCTCGGCTGAAAAGACTACAACCATAAGGAATGCAGCCTCGGCGATCTTCTCAATATCTGTGATCAAATCATCCTGCTTCCCCTGATGCAAAATTACTGCTGCACGAAGATGACAATACAGCACTTGTGCATATTCCCATACACACGTTTCAACAGAAGTTTTAGCCTTATCACTGGCAAATGAATACTGATTACAGAGAATTCCAGCAACAGGTCCAGCCTCCTTGAAAAGCACACTATCCAGATGTTGCTTCACCCGATTCTTGACAATTTCAGGTGAATTCCCATCTGGACATTGCACAGACATCTTGAGCAAATCTGGCAGAGGAAGAAGCTCCTCCAGTAGCGCCATACAGACACAACGCAACACTGACTCATGAGGAGTGACCTGCCCACACTGCGTCAAGCCCAATGCAACACATTGAAGAAGTAAACGCCTATCATCGACGTGTTTCCCTTCTAAAACTGCCTTCTCAGCTGCAAATCGGATAGTCCGCTCAGGCGCCTCCTTCAACCGTGGATCAAAATCCAGCCGGTATCTCGCTGAAGCAACCCTCAATGCCCTCAGGGCACCACAAGCTACCATCACCACCGGAGACATAACATAGCCCTGGCTCTGACACGACTCCGGTGAAATCATCTCGAATAGAACCTGAACTTTGCGCATCTTCCTCGACTCAATGAAGCCCAGCAACAACCACTCCACCAGCTTAAGCATCCTAACACCAACAGACAGGCTCCCGATCCTCCCGCAAATCGTAAGCAAGGATCCAATAATTCTTCTAAACTGCAGCTCATCAGCAGATGCCAACACGCAACCAATACCAGCAAGAGCCAGGTGATCAAGATCATGGCAGCTCTCGCTCCCCTTCTCCATGTCATCAAGAATGCGAGCTACAGCCACAACAGGATCGCTATCATGGCCATCGCCGGACTCGCCGCCGCCGCCGCCGAGATTCTCTGCTGCTGTGCTCCCCGAATTGGCATGGCTGGAGAGGCTCTTAGCACTCCTAGAGGAGGCGAGTGCGCCGAGGAGGAGGAGGCGAGGTGAGACGGGGAGAGAGGCGGGGAGAGACGGCGGGAGGAGGTGCGGGCTGGTGGCGAGCAGCGGCGAGACGAGGCGCGGGTGGAGCGGGAGCAGCGGGAGGAGGAGCGCGACGTGGGCGGAGGAGAGGCGGAGCGAGCGGCGGTGGAGGTGGAGGGTCTCCAGGGCGGCGAGGGCGTCGGCGGCGGCGGGGGAGGTGGGGTTGCGGAGGTGCGACCACGCGGAGAGGATGGTGGTCGGGGCGGGGGGTCGAGGCGGCGACGGTGGCGCGAAGGTGCCGGACTCGAGGAGGTCGGCGAGGGCCACGGCGGCGGCCGGCGGCGGCGTCGCCATGGCTGGGCTTGGAATTGGATTGGAGTTTTGGGGATTAATT

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.612687
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa02LNT0142000.1 2 1226605 A G
Osa02LNT0142000.1 2 1224893 C A
Osa02LNT0142000.1 2 1225279 T A
Osa02LNT0142000.1 2 1225796 A G
Osa02LNT0142000.1 2 1225962 G A
Osa02LNT0142000.1 2 1225987 C T
Osa02LNT0142000.1 2 1226263 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
Osa02LNT0142000.1 osa-miR531c Cleavage 3.0 15.252 1 24
Osa02LNT0142000.1 osa-miR156c-3p Cleavage 4.5 11.091 1 22
Osa02LNT0142000.1 osa-miR156g-3p Cleavage 4.5 11.091 1 22
Osa02LNT0142000.1 osa-miR156g-3p Cleavage 5.0 22.631 1 22
Osa02LNT0142000.1 osa-miR156j-3p Cleavage 4.0 14.204 1 22
Osa02LNT0142000.1 osa-miR156j-3p Cleavage 4.5 11.091 1 22
Osa02LNT0142000.1 osa-miR156j-3p Translation 4.5 17.015 1 22
Osa02LNT0142000.1 osa-miR435 Translation 4.5 19.983 1 20
Osa02LNT0142000.1 osa-miR435 Translation 4.5 16.538 1 20
Osa02LNT0142000.1 osa-miR531a Cleavage 3.0 15.252 1 24
Osa02LNT0142000.1 osa-miR535-3p Cleavage 4.0 13.068 1 21
Osa02LNT0142000.1 osa-miR531b Cleavage 3.0 15.252 1 20
Osa02LNT0142000.1 osa-miR1846a-3p Translation 4.5 24.494 1 21
Osa02LNT0142000.1 osa-miR1862d Cleavage 3.5 19.165 1 24
Osa02LNT0142000.1 osa-miR1862e Cleavage 3.0 19.022 1 24
Osa02LNT0142000.1 osa-miR156c-3p Cleavage 5.0 22.631 1 22
Osa02LNT0142000.1 osa-miR1846b-3p Translation 4.5 24.494 1 21
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