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

>Osa02LNT0185800.1

GGACAAGAGAGCAAGCTGCAGTCGTAGCTTGCAGCTCTCATAACCTCTTTCAATACAATATATCAGTACAAGCCCCAAGGCTTGCTTTGCTTACAGAATCCCATGGAAAGATACATATCAATCAGAATGAGAACCACTGAACCTGGCCAATCTGGTGGTGACTAGCATAAAGCTCTCGAACTCGAAGGAGCTTCTATTGGGTGTACAGAGATTGATTGTAGGCACAGAATAACGGGAGCAATAATCCACGAAATTAACTACAATATAGATTTTGCTCGATGACTGATTTATACCACTCCACTGGCACTACAGGTATTTCATCGATCAGACCATGCAAATTCTCTTTAAATAACCCCGTCACCTCCAGCTGCCACAGCAAGGAAAAATCTGACTTCCTGATTAATTCTGATTTGTTGGCTGACATGAGCTGCAACGTCCAAAAAGTTTCTACAAAGGTACATCCATTGCTACGCCCACGGTACCAACTATGTCACAACTAGCAAGCACGATAGGTGAAACAGCAACTGAATGATTTGCCCGTTCTCCTCAAGTATGATGCTTTCTTGGTTGCTCTCACTCCACATTGATCTTCACTCACAGAAACTGCACTACGCATGTCTTGCGCTTTCTTTTGAGCAGTGCGTAGTTTGCCCAAGATTCTATCCATCGATGATGACCTCTTCTTTTCAAGCTTCATCTCTAACTTTCGAATTGCTGCCTCTGCTTTTGCTTTCTGCAGATTTTCCCAAGCAGTGATCTTCGCTTCCTCCCTCTTGCACTTTGATACGCAGCTTTCTCTTTCTTTTTCATCAAAAGATGGAGCTCGAGTCTCAATTGTTTTCTTCCTCCACTCGACAATATTTGTTGACCGCCTATCAGACCCTCGTGTTACATGTCGCTTGGACCACCGGGTCACAGTTACTTGATCATCTACCTGGACATCTCGGACTTCAGGTTTAAGTGCATTACTATTTGGTTCTTTAATAGGATGTCCTGATGGTAAACTGGAACATGAATGTCTTGCTTTTGGAGAAGACGATATACTGTCATCAGGACTCATTTGTGTGGCAACATCTTTCTTTATTATTGGACTGGAAATGGCAGGAGTTTCTCCTCGCAGGCCTTGCAATTTATCATCTTGTGCAGTTTCTTCTGAGATATTAGCAAAGGCGGATGCTTCCATAAGTGTCTCTGTCCACGCATGTATACTTGCTGATCTCAAGATATATGGGTCCTTCTCTGCAGAGTAAGATCGGCTACTGCCATCATCCCCACTTCTACCTCTTCCACTGCTGAAGTCACCATTGCGCACGTGCTCTGGCATGAGAACCCCAGCAGAAAAAGGAGAATGTGCTGCAAAATTAGCCGCTGCCAGAACACCATCAAAGCAGGGCACAAACGGCGAAGCAGCCGCATAAGCACCCGGTATTCCGCCTGGGTGGCCAAGTGGGCCACTCTTTGACTTGGGCCGTCTATGGTGAGGCGCCGGGGCTGACATCCTTCCAATCCCATCACAGGAAACTGGACTTAGGATCCACTTCTCTGCATCCTCCCATTTTGATGGCAGCTTCCTCCCATTGTTGAAAGGAAGAACAACCCCACTGCCCCCATACCTCCTATTGGTACCACCTCCAAGTGGCACCCGCTCTGAGCTCCATCCCTTAGGGTACTGCATGGTGCTAGCGCAATGCCGGTGGTAGTTTGGGGTACCGGGGCTCGGGAATGTGCCTGATCTGCTCCGTGATGACGCTGTGGAGCTCTTGCTCATTCCTCCAACATTACCCCCAACCAAGCACCTCGGCGAGAGCACCAGCAGTTCTATGCTCCCACCACCTCCGCCGGTGAGCTCATGCTTGGCCGGTGAAAGCAGCAACGCAGCCCCCTCCGCTCTGAGCTTCCGCTGCTTCTGGCACTCTCTCAGCGAGTGGGAGAAGGAGTCACTGACCGCTTCCCCCTCCTCCTCCTCCGAGCCCGCGTCGCCGTCGCCTCTCCACTCCTCCTCCTCCTCTTCCTCCTCACCTCGCGGTGCCGTGCCACGCGAGGCGTGGCTGCCGATGCCGATGCCGTGCACGCGCAGCGGCGAGGGCGCTGGATCTGGATCGGTCGCGCCGCGAGGCCCCACCGCCGGTGCTGCGGCCGCCGCCGGTCGCCTTCGCC

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.757066
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa02LNT0185800.1 2 32287228 G A
Osa02LNT0185800.1 2 32287811 A T
Osa02LNT0185800.1 2 32289353 T A
Osa02LNT0185800.1 2 32291905 T C
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa02LNT0185800.1 osa-miR6246 Cleavage 4.0 19.956 1 23
Osa02LNT0185800.1 osa-miR6253 Translation 5.0 15.948 1 22
Osa02LNT0185800.1 osa-miR167a-5p Cleavage 4.5 16.703 1 21
Osa02LNT0185800.1 osa-miR167b Cleavage 4.5 16.703 1 21
Osa02LNT0185800.1 osa-miR167c-5p Cleavage 4.5 16.703 1 21
Osa02LNT0185800.1 osa-miR167d-5p Cleavage 4.5 16.703 1 21
Osa02LNT0185800.1 osa-miR167e-5p Cleavage 4.5 16.703 1 21
Osa02LNT0185800.1 osa-miR167f Cleavage 4.5 16.703 1 21
Osa02LNT0185800.1 osa-miR167g Cleavage 4.5 16.703 1 21
Osa02LNT0185800.1 osa-miR167h-5p Cleavage 4.5 16.703 1 21
Osa02LNT0185800.1 osa-miR167i-5p Cleavage 4.5 16.703 1 21
Osa02LNT0185800.1 osa-miR167j Cleavage 4.5 16.703 1 21
Osa02LNT0185800.1 osa-miR1860-3p Translation 4.5 17.135 1 22
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa02LNT0185800.1 2 nan Physiological trait Eating quality C621 C370
Osa02LNT0185800.1 2 qDLR2-1 Resistance or Tolerance Other soil stress tolerance RM525 RM406
Osa02LNT0185800.1 2 qDLR2-1 Resistance or Tolerance Other soil stress tolerance RM525 RM406
Osa02LNT0185800.1 2 qLTSPS2 Physiological trait Sterility RM1385 RM240
Osa02LNT0185800.1 2 qER-2 Physiological trait Eating quality C370 C601
Osa02LNT0185800.1 2 Hd7 Physiological trait Flowering R3393 R2511
Osa02LNT0185800.1 2 qEL-2 Physiological trait Eating quality C370 C601
Osa02LNT0185800.1 2 qWA-2 Physiological trait Eating quality C370 C601
Osa02LNT0185800.1 2 nan Morphological trait Seed C747 C1445
Osa02LNT0185800.1 2 qLTSPS2 Physiological trait Sterility RM1385 RM240
Osa02LNT0185800.1 2 qCHR-2 Others Others RM263 RG520
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