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

>Osa02LNT0143600.1

TAATTTGCACAGATCATATGAACATAATCAGTTGCATCGAGGCACATGAATCCGTTGCATACAGATGTAAGAAGAAACTGACAACTTATACAGTATGCCAACAGACACCCATTCCAAACTTATGCAAAGACAAGAGACGTGCAAATCGATTCGTCATGAATCATGATTCTTACATAGGTAAAAAAAATGGAATGCGATGGTTTCACTGCTACTAAATGCTAAGTACTGTGTGAAGTAGATTGCCAGATGGTTGAACCACCTACCACCGGAAATATACTGAACCGAATTCACTGGTAGCTGGGTCTACCGTTACTCCATTTTGATGTCACACTGTCTTTTGACAGCAGAAGATAAGCTCAATGTCTTGCAGTTTATCGAGATGGTCAATGTGTTCACTGAAAGAACAATAAACTGAGCTTAGGCTTCCAATAAATTCATCTATTTGGTGCCTCATCATGTACAACTCTTCAGCCCTACATTTGGATGATCACTCCTCTATTATCCTGCGTGGTTGGGTTTCCCCAGAGGCGGCGCAGATGAAGGTCCCAATCTAGCACAAATCAATGGGATGTGCAGCTGTGCACAACATTCATCATCAACTGTCGCTTCAGTTCACATCGAATCCCTATGTATAGCTTAACACCCATTCACAGGGAATCAGATATAGGGTTAGATCCTTTGACATGTCTTTCTTGACATAATTGCTTTAATCATAACTCTTTCTGAAAGGTAGCCTAAAATAGCAACATCAGCCAGTGTTTTCTAGTACATAAATGTCATCATTCTGCTGCTGCTTATTCTCATAAACGTTGCCTCTTTGACCCCATCCTGTCTTCACTCTCTTGGTGATTTTCATGACTGTGCGAGCACTGTCATCTCTGTGCAAAAGAGCATGCCAATCACTTTCAGCATGCTTGTCCTGTCCATGCTTCTGACTTCTAGGCTTAAATTCGCCAGAAGGAGCTGCAAGACCATTATCACGCTCTGCCATTTCCATCATTTTTTGTGAGAGCATATCAACATGTTGCTTCTTTCCCCTTTCACTCAATGCATCAATCACTGGCATGAATGCTGCTGGATCAAATGAATATCCTTTAACCATTAACAGCTTGAGTAACCTATGTCCATGATCCACCTCATCAACTTTGCAGAGTCCCTCAATAATCTGCTTATATGGGAATCTATGGATAGAGATCCTTAATTCAAGCACTGTTTCTAGAATATTCATGGCTTCCAACCATCTACCATAAGTAGATAACTGGGTGCACATTAAACTATAGAGCACTTCCTTCTGACCACATGTACTCAGAGAAGCATCAAATACTCTCTGAGCTGCAGAGAAATCTGAAGTTTTGCAGAAAGCCTTAATCAACAACTCAAAAGAAGTTATATTAGGAACAATTTCATTCTGTAACATTTCATCTAAAAGAGGCATGGCCTTGTTCACCATTCCCCGTTCACAAAATGACTTTATCAGGCTATTATAGGTCATGACATTGGGACAAATCCCCTTCCCCTTCATTTCACTAATCAATTTAAGGATTTCATCTGAATTGTGTTTTTCCCGAAATCCCCATATCAACAAGTTGTATGTCCTTGTGCTTGGCTTGCAACCTTTCTTTTCCATGTCCCTCAGGACCTTAACAGCCAGAGAAGTCTTCCCATGCTTGCAATACCCATGAATAAAGGTATCATATAGAACCGAATCAGGAGAGATATCTTTGCCTATCATCTCAAGCAATTTCTTCTTTGCTTCATCAAACCTGCCCTCTTTGCACAATGCACTCACCAGTGTAGAATAAGTGATTCGGTCAGGAAGACATCTTTTGCTGCTGGAAGAATCAGTAAGTAAACTTAGGAATGAATAACCTAATCTGCCAAGAGCCAAACTACCTTCGTTCCACATGCCATCGACAATGTCCATGGCCATATCCAATTTGTTGTTTCTACATAGTCCATCAATAATGATATTGCAGCTTGCTGTATCCAAGCTGTATCCTTTCTCACTCATCCTCTCTAACAATCGTTCTGCCTCTGTAATCCTACCAGCTTTCCACAAACTTTGCAGCAGAACATTGTAAGTAAATGAATTCGGGGCACACCCCTTCTGTGCCATCTCATCAAGAATCCTATTGGCTGCAGCAGCATTTCCCTCTGAGCAATAAGCGTGGAGCAAACTAGTATAGGTCACAACATCTGGTGTCATGACACCACTCTTCACAAAATCCTCCACTTTCCTCACATCAAACGCTTTGCCCTCCTTGCACAACCCATCCACAATAATATTGTAGGTGTAGCTATTAGGTTGAACACCCTCATGCGCCATCTCCCTCAGCAGCTCCTGTGCTTCCCCAACCATTCCATTCCTCACCAGCCCTGACAACCAACGGTTGTAACTCTCAACCCGCCTCAAGAAACCACCGCACCTCATAATATCCACCAGGACTCTTGCTTCATCCACCATACCAGCCTCACAGAACCCACTCAGCATCACGTCAAACGTCACCTGGTCAGGCCTCGGCAGACCTCTCTCCCATTTTTCCTGCATGTCGTTGAATATCCTGTATGCATCTAGCACCCGCCCAGCTTTGCAGAGTGCAGAGATCCTCGCATTGAATGTGACCACATTTGGAGCAAGACCCTCATCTCTCATGCGCTCAACTAGCCTCTCAGCCTCATCCACCTGGCCCTCGCGGCAGAACCCCGCGACTACTGTGTTGCATACCACCAAATTCATCGTTGGCATTGAATCGAGCACCCCAAGCGCGTCCATACTCCTCCCCGCACGGCAGTACCCACGCGCCAGGATCCCGAAGCTGAACTCGTTCCTTTCCGGCATTGCGTCGAACACCCTGCGGGCGAGCTCCAT

Coding Potentia
Explanation CPC Score
noncoding -1.29733
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa02LNT0143600.1 2 1667472 G A
Osa02LNT0143600.1 2 1669618 A G
Osa02LNT0143600.1 2 1670033 G A
Osa02LNT0143600.1 2 1670127 G T
Osa02LNT0143600.1 2 1671668 C T
Osa02LNT0143600.1 2 1671803 T C
Osa02LNT0143600.1 2 1669651 G A
Osa02LNT0143600.1 2 1670756 C 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
Osa02LNT0143600.1 osa-miR812v Cleavage 4.0 15.564 1 24
Osa02LNT0143600.1 osa-miR169a Cleavage 5.0 18.478 1 21
Osa02LNT0143600.1 osa-miR169b Cleavage 5.0 18.478 1 21
Osa02LNT0143600.1 osa-miR169c Cleavage 5.0 18.478 1 21
Osa02LNT0143600.1 osa-miR169f.1 Cleavage 5.0 15.384 1 21
Osa02LNT0143600.1 osa-miR169g Cleavage 5.0 15.384 1 21
Osa02LNT0143600.1 osa-miR169h Cleavage 5.0 15.384 1 21
Osa02LNT0143600.1 osa-miR169i-5p.1 Cleavage 5.0 15.384 1 21
Osa02LNT0143600.1 osa-miR169j Cleavage 5.0 15.384 1 21
Osa02LNT0143600.1 osa-miR169k Cleavage 5.0 15.384 1 21
Osa02LNT0143600.1 osa-miR169l Cleavage 5.0 15.384 1 21
Osa02LNT0143600.1 osa-miR169m Cleavage 5.0 15.384 1 21
Osa02LNT0143600.1 osa-miR1854-5p Cleavage 4.0 9.22 1 21
Osa02LNT0143600.1 osa-miR2094-5p Cleavage 3.5 10.464 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa02LNT0143600.1 2 S29(t) Physiological trait Sterility nan nan
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