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

>Osa02LNT0141300.1

GAAAAAGACAAGCAGCATCACCTCGTAACCTTTGCCATCCAATCCAATTCAAATCGACAATTACAGAACAGCTAAGCAAAATTCCGCTTTATTAACTACAGAAAACCGAAACTATAGTTTCCTCACAACTGTAGAAATGGGTAGTAAAATGGAACATATCCTATGCTTTATAGTGGAGTATTACAGAAAACAAAAACTCTCCCTGATTGATCTGAATCTTGCAGCCTATCGAGAAGCAGGAACGGCAGTTTCAGCTGGGGACTCTTGCTCCTGTACCAGTGACTCCCACTCCACCTCCTTCAGGATTCTGAACCTCTCGTCGAGATTTACGAAACCGGATTGCTGAGTGACCGCTCCACAGGTGCCGGCTTTGTGTATGAGGACTACGGTGCCGCCCATGTCAGGCCCATGAAGCTTGCCAGTCAGCAGTACACGGAGCGGCATAAAGAGTGACTTTCCCTTTCTTTTAAGTGATTTGCCAAAAATTTTCACCCACTTCTGCCAACCATCACGGCCCTCAGCTAGTGCTTGACAAAGTTCACCGCTATCATAAGCAGAAATGAGTCCTGATGCAACCTCAGAAAGCTTGTCTTGCACCACAGATTTAGCTTCATCACTGCTTAATGTAGCATGGAGGGGATACGACAACAGGTTTGAAAGGGCTGCGTCAGCATCAGTGATCAAATCGATGCCATCCTTCAAAAGCTCAGCCGCTTCTTTAGCAAAACCACTTTCAGACTCCTGGAGAATGCCTGTGTCCTTCCATCTATCCTCAAAACTCTTGATGAGTACATCAGGGGGAAATGATCTTAGATGTTGTCCATTCATCCATTTTAATTTTACAGCATCAAAGACTGCTCCACTTTTGTTGACACGATTTATAGTGAATTTTTCCACTAGGTCATCAATGGTGAAGAACTCATTTTCAGTACCATCACCCCAACCAAGAAGTGCCAAATAATTTACCATTGCCTGAGGCAAATAGCCCATCTCTTTGTACTGTCCCACAGAAGTAGCCCCATGACGTTTAGACAGTTTACTTCTATCAGGAGCTAGAATAAGTGATACATGAGCAAACGAAGGCATTGGAAATCCAAGTGCTTTATAAATAAGAGCCTGCCGTAATGTGTTTGGCAGATGTTCTTCAGCTCTGATAACATGAGAGATGCGCATGGTAGCATCATCAACTGTGACACAGAAGTTATACACTGGCTGGCCATTGCTTCTCATAATCACGAAATCACCAAGCGTGTCTAAGTTCCAACTCACCACGAATAAGGTCATTAATTTTCAACGACCCTTCCTTCGGTACACGGAAACGGTAAGTGTAAGGTGTCCCCTTCTCTAACTCCTGTTGTATTTCTGCATCTGAAGCAGTCCCCCACTTGCCCATGTATACAGGTGGAAGTTGCATCTGCTTTGCAGTTTCTTTCATCTGTTCAAGTTCCTCACTGGAGCAAAAGCACTGATAGACTGCACCAGACTCCATCAGCTTCTCGGCATACTGTTTGTACATCGAATTGCGCTCGGACTGGCGATACGGCCCAAATTCCCCACCAACATCGGGACCTTCGTCCCAGTCAAGGCCGAGCCAGGCGAGGTCACTGAGCACGGCCTCCTCGGACTTCTTGGTGGACCTCTCGAGGTCGGTGTCCTCGATGCGGAGCACGAACTTGCCCCCCTTGGACCGCGCGAAGAGGTAGTTGAAGAGCGCGGTGCGGGCGCCGCCGACGTGGAGGTTGCCCGTCGGCGACGGCGCGAAGCGGACCCGCACCGGGCCGCCGGCGCCGTCCGGTGACGCCGAGGCGGAGGCGGAGGCGCGGACGGAGAGGGTCCGGCGGAGGTGGGGCCGCAGGAGGCGCGGCGGCACCTCCGGGAGCAGCCTGATGCGCAGCCATGGCGACCCCATTGCCGCCGCCATCATCTCCGGAG

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.997918
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa02LNT0141300.1 2 1090462 A C
Osa02LNT0141300.1 2 1091231 A T
Osa02LNT0141300.1 2 1091572 A G
Osa02LNT0141300.1 2 1092332 C T
Osa02LNT0141300.1 2 1092379 A C
Osa02LNT0141300.1 2 1092704 T C
Osa02LNT0141300.1 2 1092993 A G
Osa02LNT0141300.1 2 1093598 G A
Osa02LNT0141300.1 2 1094429 C G
Osa02LNT0141300.1 2 1095460 A C
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
Osa02LNT0141300.1 DTM_#DNAt_MULE_japo_Os0229 Chr2 - 1094878 1095414 536
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa02LNT0141300.1 osa-miR171d-5p Cleavage 5.0 24.828 1 21
Osa02LNT0141300.1 osa-miR171e-5p Cleavage 5.0 24.828 1 21
Osa02LNT0141300.1 osa-miR530-3p Translation 4.5 21.49 1 21
Osa02LNT0141300.1 osa-miR2866 Cleavage 4.5 22.977 1 20
Osa02LNT0141300.1 osa-miR2868 Translation 4.0 12.832 1 20
Osa02LNT0141300.1 osa-miR5159 Cleavage 5.0 12.445 1 24
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