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

>Osa02LNT0185100.1

GACGTCAACGGTGCCTCAATCTTTCTTAAATAATCATTCTCTTGTTCACATAAGTTAGATTCTTTTTTTTTCTTTTTGAGAAAAGAAGATAGATGGTTACACTTGCTGAGCAACTTAAATCCTCAGCCCCCTGAACGAAGCAGCAGATTTCCCAAGCAAGCAAATGAAATGCAACCATGCGCTGGCTTGGAATAGCTCGATCAGTACCCAACCCCAACTCAATGAACTGGACCCAGCTCGATCAAGGCGTGAAGCTCATCTCGAACTCATCATCGCCAACCATCATGAAATGCGACCCATGATCAATCACCTTCTTGCCGTCCTCCGTCGCTCTGCTGAAGTGCTTGCATGGGCTCACCTCGAACTCCACATGGACAGTCTGCATCGACTTGAGGTGCAGGCTCTGGAAGCCGATCAGCTGGCTCGCCGGCCTGCCGCCGTCCGCCGCGCCGTTCGGCCAGCGCAGGAAGAGCAGCACGGGGTGCCTGCCGTCCATGGGGCCATGGTTCTGCACCCTGACGAGCGCCGGGAACTTGAGCTTGTCACACGTCTCGGGGCCAATCTCTTCGACGTCATAGCTCACCGTGCCTGCAGCTGCTGTCGCCATCGCCTTCAGGCCATCGATGCTGCTCAAAGACGGCAGCTTCGTGCCGTTTGCGACGAAGTGGTGAGAGTACTTCGAGTAGCTGAGGCCGTAGCCGAACTTGTAGACGGTGTTGCCTCGGTAGAACCTGTACGTTCGTCCGGGATATCCCGTGGATGGATCGGCACGCATCCGCATATCTGTCATGGGCACGCTCGTGAACTCCTTTGGATACCAGGTCACTGGCAGCCTTCCACCAGGGTTGTGCTCTCCAAAGAGGACCTGAGCAATCGCAATCCCTCCAGCCTCGCCAGGGTAACCAGCCCACAGGATGGCCCCAATCTTGGGATTATACTTAGCAAAGGTCACATCCACTGGACCACCACACAGTAGCACCAAGATCACCGGCTTCTTTGCCGCGTTAGCGACCGTGTTGATGAGGTTCTCCTGCATTCCTGGGAGCGACAGTTCCAGCCTATCAACCTCTTCCCTCTCCTGATCTTGGTCTAATCCCATGAACAGCACAACGTAGTCCACTGAACTTGCCAATTGCGCCGCTTCACCAATTGATGACACATTGCAGGCAGCCGAGTTGCACCCAGCTAGGAACCTGGTGTCCTTCACATAGCCTTGCAGCACTTGGAGAGGAGTCACCGATATGCAAGGAGGGCCGAAGTAATTCCCAAGCAATCTCGTGGCGTCATTTGCGTTGTGCCCAATGACAGCAATGGATGAGACTTGTGATTTGGACAGGGGGAGAGCATTGGCGTCGTTCTTCAGTAGGACAACGCCATGTTGTGCTGCTTCAAGGGCAAGGTTTTGGTGCTCCTGCGTGCACACCTGGTCTGGGCCAATGTTACCGTAGCGGTTGTACTTTGGATTGCCGTTGAAGAGCCCCAGCCTCATCCTGACAGCGAAGAGGTTGTGGAGGGCTCTGTTGATGTCTTGTTCTGTGATCTTCCCTTGCTGGATTGCAGATAGACCATGTTCCTGCACGTAGCTGCCGCAGTTCACGTCCATTCCAGCCTTGAGGACATCTGCAACTGCATCTTCCGCTGTCTTGGCATATCCTTGGACATCATGGATGATGGACACAGCATCACAATCTGAGGTGATATATCCGTAAAACCTCCAATCTCCCCTTGCAGTTTTGGAGAGGAGGTTGTAATCGGCACAAGTTGGCACGCCATTGACGCGGTTGTAGGAGCACATGATGCCGCTGGCCCCGCCGTCCTCGACGCAGCTTCTGAACGGAGGGTTGTACGTGTCGGCCAGGTCCTGCGCCGTCACCTTGGCGTCGAAGGCGTAGCGGGTGACGCCCTTCCAGTTCTCGAGGTCGTAGGCGGTGAAGTGCTTGCAGCAGGCGGAGGCCTCGAGGTCGGTGGAGTTGATGGCGCCGGCGAGGGCGTAGCCCTGGACGCCGCGGACGAACACGGCGGCGTACTTGCCGGTCACCGTGGGGTCCTCGCCGGGGGTCTCCTGCCCGCGGCCCCACCTCGGGTCCCTGAACACGTTGATGTTTGGCGCCCAGAACGTGAGCCCTTCCGCCTGCCCGTTGTTGTACACCGCCCTCGCCTCCGTGCCGATCACCTGCGTTGCGTGCCCCCAATTGCACAGCACCCAAACCAGAATCAGTTTACAGAGGAATTCAGGTACGGTTTTCTCTGCTCTTGTTTCGTGTTACTACTCTGCATGTTGTTGCGGTTTGCTGCGTTGTTTAGTAGTATCTGCTTTACGACTTGTTACCGTCTCAAAAGGTTGCGGTGAATCTCATTACGTGCTTTTGACAAAAACAACCCCAAAAGTTGCATGCATGTACCGAACACGTTCTTACCTACTCCTATAGGTCCGTAGGTGTACAAAAGTTCATAGGGCCGACGGGTGATGGATTACCAACAAGCTGCCTAAAATGTGTGGATTATTGGACTCAGTATGTACCAGTAGCACCCTGAATATATTACTGACATTCTGGGCATAAATTAGGCGCAAAGACTCCTCTGTTTCTTTTAACCCCTCAAAGGTAAAATTGAGAAAGAGACTACAAATCGTAATTCCCAGTTACACTTATTACACTTAAGTCCCTTCCAGTACTGAACAGTAACTAACCACTGGTGTTAGCGTGAATTTGCACCAACACGGTAAAAAAGTAAAAGTGAGGAAACGATCGAGGCCGTGCATGCGCTGAGCACGTACGTGCGTACCTGGCCGATACGGTACCAGAGGTGCGGGTTGAATGACGCGGCGGTGAGGATGACCTGCGGGAAGCTGGTGGCGGCGCGGAGCGGGCCGTCGAGGTGGATGCCGCGGCCGGCGTTGGAGACGCCGTGGAGCGCCTCCGACCACCACTTGTACGCCGGGACGCCGAGCCGGTCGACGGCCGGCGACTGGTCCCCGAGCTGCGAGATCTTCTCCTCCAGCGTCAGCCTCGACACGAGGTCGTCCGCGCGCTGCTCGATGGGCAGCCTCGGGTTGCAGAACGCCGCGCTGGACGGCGCGCCGCAGGAGAAGGGCGGGCCCGACGCCACGGCGACCGCCGCCGCCGCGGCGGCCAGTGCCAGCAGCAGCAGGAGCGGCGCCGGCGCGTGGAGGAGAGCGCGCGCGCGGCGTCCCATGGCTTCGTGTGCG

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.877097
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa02LNT0185100.1 2 31611695 G T
Osa02LNT0185100.1 2 31611884 T G
Osa02LNT0185100.1 2 31612196 G A
Osa02LNT0185100.1 2 31613321 T 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
Osa02LNT0185100.1 osa-miR397a Cleavage 5.0 14.506 1 21
Osa02LNT0185100.1 osa-miR168b Cleavage 4.5 19.729 1 21
Osa02LNT0185100.1 osa-miR1875 Cleavage 4.5 21.076 1 24
Osa02LNT0185100.1 osa-miR2101-3p Translation 4.0 16.175 1 22
Osa02LNT0185100.1 osa-miR2106 Translation 5.0 22.296 1 21
Osa02LNT0185100.1 osa-miR2866 Cleavage 3.5 16.569 1 20
Osa02LNT0185100.1 osa-miR5076 Cleavage 3.5 15.258 1 22
Osa02LNT0185100.1 osa-miR5497 Translation 5.0 24.951 1 21
Osa02LNT0185100.1 osa-miR5504 Cleavage 4.5 13.725 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa02LNT0185100.1 2 qLTSPS2 Physiological trait Sterility RM1385 RM240
Osa02LNT0185100.1 2 qLTSPS2 Physiological trait Sterility RM1385 RM240
Osa02LNT0185100.1 2 qCHR-2 Others Others RM263 RG520
Osa02LNT0185100.1 2 nan Physiological trait Eating quality C621 C370
Osa02LNT0185100.1 2 qDLR2-1 Resistance or Tolerance Other soil stress tolerance RM525 RM406
Osa02LNT0185100.1 2 qDLR2-1 Resistance or Tolerance Other soil stress tolerance RM525 RM406
Osa02LNT0185100.1 2 qWA-2 Physiological trait Eating quality C370 C601
Osa02LNT0185100.1 2 qER-2 Physiological trait Eating quality C370 C601
Osa02LNT0185100.1 2 qEL-2 Physiological trait Eating quality C370 C601
Osa02LNT0185100.1 2 Hd7 Physiological trait Flowering R3393 R2511
Osa02LNT0185100.1 2 nan Morphological trait Panicle/flower RG139 CDO686
Osa02LNT0185100.1 2 nan Morphological trait Seed C747 C1445
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