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

>Osa02LNT0185700.1

GTAAATTCAGATACATCTTGTCCAAAATGGCAAGGAAAAGTACATATGTATAAGTTCAGATACATCTTATCCAAAATGGCAAGAGAAGTACACAAATTAAGAACAAGATGGTAACACCGACATAGGTTCCTACAGCAGCAAAATACAATACAGGTAGCAGGCACCATGGTTAAATAGGTTACATACAATGCTTGGATATAACTCAGACAACTAAAACCTATCGAGTGAATATCTCAGGCAGCCTGTCCGCCCAAGAGACAAGCCCACGGACTAATGGTTGGCCTACAAGGGCAGATCGATCTGGCGATTCTGAACTAACCTACTACTATACTCACTTTGAAAGGACTGTGTTCTAGTTACAGGTAACTGGCAGCTTCACCATCCTACTACTACTGTAATCACTGCTCACTTTGAAAGGACTGTGTTCTAGTTACAGGTAACCAGGTCTTCAGCTTCACCATCCTACAACTACTATGATCACTGCTCACATTGAAAGGACTGTGTTCTAGTTACAGGTAACTAGGCCTTTAGCTTCGATCACCATGGACCCGTCAGAGTCCTCCGAAGGCAAATTCTCTTTGCTGTCGGTCCAACTTGTCGGCTCATTCTCTCTAGAACCTGCAGAAACCATTAACAGTGCATTATTAGACTTTTACGCGGTGGTGTCTTGAAGCCAGAGGAAAATCTCAAACTAGGAAACGAAAAGCTTGGAAACTTCTCTCCCAAATTTACCAGGAACAATTGTCAGATAGTATGCTGACAGAAAAATAAGGAACCCCATTTTGAAGTCATTAAAACCCAACCAAAGGACAACATAAATTAAATAGAATTGAGTGGTGATTTGCTTTTTCAAAAATGAATTGTACAGTTTATGATAACATCAGAGGCTCCATTGTTTTCCTTTTTACCAAAATACAATTATGTCGAGTAGAAGTGGCAAGAGTCTACAAGAGGCTCTTTCTCAGAAATAGAAATACCAAGTATGTGTGCTACATACCAGTATTAGTTAGAGCAAGCATTCAGTAATTCAGTTTTTGTCCAATCCACATTTTTTCAGGGTTAGAGTAGCCTCTAAAAAACTGATGATTCTAAGTTTCAAACCATTTGTGGCACTCCCTTAGCTTCTGTACACATTCAAACTAGTGGTCTAAGATGTGGAAAAACAACTAGGACATGGAGGGAGTGCGGTTTGAAATTCTGCCGCCTCAGTGTTATGAGAACATATCCCTTTTTACAGAGAACAGTCAGTCTTCTCAGCAGAGTTTACAACGATTGGCCTAAGGAGGTATCCACAGATTTTACAGTGTTGAGAGATGTGTTAACTTCATGTAAAGTTCAGTCAAAATTGTCAGTTAAATTGATTGTAACAAACAATATTGACAGTTTCACAATTGTCTATCCTGTCATAACTTTTTTAAGTGTTATGTTGTGGAAAATACAGTTATACCCCACTACGATGGAAACATAGGCATTAAACTATACACACATCAAATAACTGTTTTTTGAATAAACTTTAATATTTGCTTGCCCTTCCAATGTTGCATTTAGTTAAAACTGTATTATTATAGATGAAATATCATTTAAATGGTTATAATTCAACAATGATGGCAGTTGACTGATCAATTCAAAGAATTTCTTTTTTAGTTTAAGCCATTTAAATGCTGCCACCTAACCCCTGATGTAGGAAAATGCAATCAATCACATCGACATCAGTCCTTGCCTCATTATTTCTCAACCCCCCACAAAGCTTTACTTCATCATTGCTTAAAATCCCATACTATAAGGTAATAGTGTGAAAGCCAAAACTCACGACCAGTAGCTATCAATCAGAACATAACGTTTGACATTCAAACAAGTGAATCAATAATTGTTAATATACACAGCATACATTTTCCTAACAATAATTGTTAAAATTCACACCATACATTACGAGCGAAAAATAATCATAGAGCAGAGCATATGTATGATATTGACAGATTAGGCTGTAATACTCATGTAAAGGGTAAAACTATCAGATTTTACAGAGTAAAACTTTTTGGTAAACAAGTAAGCTATCAGTAAAACAGAGCATGCCTAGGTTGCACAGCTTCGTTTTGTTTCTTGTTTGACATTAATAAGCAAAACATAGTACCTATCCAGAGCAAAAGATTTTTTTTCCAAGATAAGCAATTACCTCATTCTTTTGCTGCTCCAACATTTCATCCTGCTTTTTCTGGAGTTCATCGTTCAGCTCCTTAAGTTTTGCTACCTCAGCTTCCAATTCCATCATATATGCCTGTTTCCTCTGGCGCGACCTCGCGGCAGACTCCCTGTTCTTGATCATCCGCCGCTGTCTTCTCTCGACAACCTTCTCGATGCCCGGTGCCTTCCTTCCCCTCAGCCCACCTTTGAAAACGTACGGCACCGGCGATGGCGACAGCGACGACAGGTCCCCGCCTTCCATCTTGCCGAAGCCATTGGACGAGACCGGCCTCACCGGCGAAACCAACGACGCGGCACCACCACCGCCGTGTCCGACAGCTCCCGAGACCAGCCCATTTCCCAGCGAGAGCGGAGGCACCATCGGAGGGAACACATTGCTCTGACCGAACAACATCGGCGTCTGCTGCTGCGGCGGCGGCGGGGGAGGTACAGCAGCCGCCGTAGGAGTCGGCGCCGGCGGGACGGGCGGGACCGACATGTCCTCCCTCACCACGCCGGCCCGCACGAGGAACTCCTCCAGCGTGATCTCCCCGAGCGTCTGCTGCCGGTGCGCCGGCGGCGGGGGCTCCGCGGCGGCCGGCGCGGTGGAGGCGCCGCCGCCACCGAAGCACATCATGTCGCGCCAGACCTCGTCGACGGTCTTCTGGCTGAGCGTGCGGGGGAGGGTCAGCGACCCCTGCCTCTGAACGGGCGGCGCCCCCACCGCCGCGTGCTCCGCCGCCGCCACGGACGCCGTCGTCGCCGTCGTCGTCGTGGCGGCGCCGACGGCGTGCGACTCCTCGGCCGTCCAGATGCTGCGGAGGAGCTCGTCCATGTTCATCGACCCGAAGTCCTTCCCGACCCCGCCCAGCGTGCTCTGGAACTCGTCGAACGTGAGCGAGTACACCGACCCCTGCCTCGCCAACGGCAGCGGCGTCATCGGCGGCAGCTGCTGCTGCCTCCCGCTCCCTCCCGGAAAATCCATCTCCAAACTCCAACCAACCAATCCCCAACACCCCAGCACCAAACTCACCCAACCAAACCAATCGAAAACTCCGCACGGGGAGCAACCACCACGCCTGCTTCCCCGTAACGCAACGAGGGATCAGAGACGGGAACCTGAGGAGAGGTGGGATGTGGAGCTCTGGCGTTGGTGAGGAGGACGCGGGCGCCGCGGCGAGGCGAGGAGAGGAAACCGGAC

Coding Potentia
Explanation CPC Score
noncoding -1.20128
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa02LNT0185700.1 2 32277597 A G
Osa02LNT0185700.1 2 32279356 A G
Osa02LNT0185700.1 2 32280117 T C
Osa02LNT0185700.1 2 32277908 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
Osa02LNT0185700.1 osa-miR397a Cleavage 5.0 9.984 1 21
Osa02LNT0185700.1 osa-miR397b Cleavage 5.0 9.984 1 21
Osa02LNT0185700.1 osa-miR818a Cleavage 4.0 12.643 1 22
Osa02LNT0185700.1 osa-miR818b Cleavage 4.0 12.643 1 22
Osa02LNT0185700.1 osa-miR818c Cleavage 4.0 12.643 1 22
Osa02LNT0185700.1 osa-miR818d Cleavage 4.0 12.643 1 22
Osa02LNT0185700.1 osa-miR818e Cleavage 4.0 12.643 1 22
Osa02LNT0185700.1 osa-miR1846a-3p Cleavage 4.5 24.771 1 21
Osa02LNT0185700.1 osa-miR1846b-3p Cleavage 4.5 24.771 1 21
Osa02LNT0185700.1 osa-miR2122 Translation 5.0 14.281 1 22
Osa02LNT0185700.1 osa-miR2864.2 Translation 5.0 13.58 1 21
Osa02LNT0185700.1 osa-miR2931 Cleavage 5.0 14.078 1 20
Osa02LNT0185700.1 osa-miR395x Translation 3.5 12.893 1 21
Osa02LNT0185700.1 osa-miR5802 Translation 3.5 16.519 1 24
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa02LNT0185700.1 2 nan Morphological trait Seed C747 C1445
Osa02LNT0185700.1 2 qLTSPS2 Physiological trait Sterility RM1385 RM240
Osa02LNT0185700.1 2 qLTSPS2 Physiological trait Sterility RM1385 RM240
Osa02LNT0185700.1 2 qCHR-2 Others Others RM263 RG520
Osa02LNT0185700.1 2 nan Physiological trait Eating quality C621 C370
Osa02LNT0185700.1 2 qDLR2-1 Resistance or Tolerance Other soil stress tolerance RM525 RM406
Osa02LNT0185700.1 2 qDLR2-1 Resistance or Tolerance Other soil stress tolerance RM525 RM406
Osa02LNT0185700.1 2 qER-2 Physiological trait Eating quality C370 C601
Osa02LNT0185700.1 2 qWA-2 Physiological trait Eating quality C370 C601
Osa02LNT0185700.1 2 qEL-2 Physiological trait Eating quality C370 C601
Osa02LNT0185700.1 2 Hd7 Physiological trait Flowering R3393 R2511
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