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

>Osa01LNT0013000.2

CCGAAAACTGGGATATTTATACTATTTCAAAACTGGCGAGCAGTTAAACCGAGATAATCTTTACACACTTCAAAACTGACAAATAATAATACTACTTATCACCACAACAGAGAAAGGGGAAAGGAGAGAATGATGCAAAAAAAAAAAAGGGTAAACCATATATGATACTTGGCACGCTTTGATACCACCAAACAATTGCGATAAGCTATAGCTTCTCCATATGACACCCACTCTGTTCTGAAGATGGCTTTGCCACGACACAGAGCAAGACGCATATGAAACAGCGTGTGGTAGGCTCTACAGCTGCATGCGGACTGTATAAGACGGCCTCCGACGCAAAAATGCCGTTTCACAAATTCATGGAGCTCAACGTAGGAAACACCTCCCTTCAGGTCTGTTATGTCGAAGAAGGTAATAATATTCTCAGTTGCTATCCATTAAACTTTATCAGCACTGTCAGGCTCATCAGGAACGTGTCGCTTCCGATAATGGAAATAAAGAAACTGAAGAATAATAAAAGTATCAAGCAAAACACATCCTCCAGCATCTACAAGCCACGGTAGATTCGGCTTAAGTTTTGACCAATCCATGCTTTTCACAAGTATACTTCCAACGTATGTCACATTTCCCACTAATGCAAAAGTAAACATTAGTGGATTGAGTCCCTGAATGAAATTAGAAGTCAAAAGGAGTTACACAATAGAAGGGAAAACATTTGCAAACAAACAAAAATAGTAGTTAGTTGAGTAGATGCAACAAAGCGATCTATTTGTCTTAACCAAATATAAAGAATAGAAAATTGAAATCGGTCTCCTCAGTAAAAATGGCGATGAACTTGCCTCAGCATTCCCTCTTTTCATATTTAACCAGATCTGGGGAAGTCGTCCACCCATATAGATTACCGCCATAGCCCAACCAAGGAAGCTTCCAATTCCACTTCCACTGCCATTGCTGACAGATGAATCTGCATGGTCATCCGCCAACAGTAAAAGCCTTCTCCCGACAGGTATGACAATACCATTTGGCACCTCTTGATGGGTTGTTCCAACTAAAAAATGCAAAACACTCATACCCAAGAGAAGGGACATCCATGGTACCACTGAGAGAGAATTCTTTATTAAAGGAGATGCTGCATATTGTGCTGGGGAAAACTCACTGACCAAGGATTCCTTTTGGTCATCTATTTCTGGTGGAGAATTTGTTTGATGATAATTAGCCGACCATGTGCCTGACATTGGCACTGGGCTGCTTGAGAGAGATCTTGCTGACGTGTAGTAGTATTCACTGAGGCTGCTTGGGCCATGTCGTTGCCGTACTATTTCTGTATTAACTGTAATTGGAGAACTTGTTGGAATAGGGACGGTTGCACCTAGGTGGCTATTGTTTCTGATTTCCCCAATAACCTTGGGCCCCAAAAGCTTTTCTCTCAATGAAGCATCAGCACGCTGATGCCTCTGAGGCTTGCTTGTTGCCCTGGCTTTTTTTGCTTTAAGACGGTGATATATGTGGCTATAGTATACTGTCTGTCCAGTGAGAATAACAGTTGTGATGGTGTATAGCAGAGCCATGTAAAATTGTGTTGGCAGCGTCTCAGGTTCCAAGAAGCAGCCAATAAGGTTAAAAAAGTCCCCAACAATCCATGTCATTAGAAAAGCAAGGGAAAGGCCTTCTGTTGACTTATGCTTGTAATTAGTTATGATCTGTGGCACCTCAGCAACTCCCCAGCTGATGACGCTTAACAGTCCAAGCGTCAGTGCCATGCCATCCCTCGTGCTACAAAGGCAGTACTTCAGGTAGGTTTGAGCCCATTTTGCGCAATTCGCGGCCGACGGGCAGCTAGGGCGATGTGCTCCCGCTCCACTGAAGATGCCCATTTGTGCTCCAGACCGGAGAGAGAAAAATCTCTCACTGTATATATTTTTTTTAATTTCTCCCTTGGTCTGGAAGTGACGAGGTGGAGTTGGAGAAGAAGAGAGAAACAGAGAGGAAGCAGGTGAGGT

Coding Potentia
Explanation CPC Score
noncoding -1.20489
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa01LNT0013000.2 1 9137750 T C
Osa01LNT0013000.2 1 9138244 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
Osa01LNT0013000.2 osa-miR5530 Translation 4.0 18.404 1 21
Osa01LNT0013000.2 osa-miR167a-5p Cleavage 5.0 22.156 1 21
Osa01LNT0013000.2 osa-miR167b Cleavage 5.0 22.156 1 21
Osa01LNT0013000.2 osa-miR167c-5p Cleavage 5.0 22.156 1 21
Osa01LNT0013000.2 osa-miR167d-5p Cleavage 5.0 22.156 1 21
Osa01LNT0013000.2 osa-miR167e-5p Cleavage 5.0 22.156 1 21
Osa01LNT0013000.2 osa-miR167f Cleavage 5.0 22.156 1 21
Osa01LNT0013000.2 osa-miR167g Cleavage 5.0 22.156 1 21
Osa01LNT0013000.2 osa-miR167h-5p Cleavage 5.0 22.156 1 21
Osa01LNT0013000.2 osa-miR167i-5p Cleavage 5.0 22.156 1 21
Osa01LNT0013000.2 osa-miR167j Cleavage 5.0 22.156 1 21
Osa01LNT0013000.2 osa-miR810b.1 Translation 5.0 21.724 1 21
Osa01LNT0013000.2 osa-miR1439 Cleavage 4.0 18.752 1 21
Osa01LNT0013000.2 osa-miR1439 Translation 4.5 10.199 1 21
Osa01LNT0013000.2 osa-miR2864.2 Cleavage 4.0 15.506 1 21
Osa01LNT0013000.2 osa-miR2929 Cleavage 4.0 19.172 1 21
Osa01LNT0013000.2 osa-miR5494 Cleavage 5.0 21.641 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa01LNT0013000.2 1 nan Physiological trait Source activity RG532 RM472
Osa01LNT0013000.2 1 An9 Morphological trait Panicle/flower nan nan
Osa01LNT0013000.2 1 rfw1b Resistance or Tolerance Drought tolerance C813 C955
Osa01LNT0013000.2 1 nan Morphological trait Root RM7383 RM23
Osa01LNT0013000.2 1 nan Resistance or Tolerance Insect resistance RM576 RM3412
Osa01LNT0013000.2 1 nan Resistance or Tolerance Salinity tolerance RM1 R886
Osa01LNT0013000.2 1 nan Resistance or Tolerance Salinity tolerance RM1 R886
Osa01LNT0013000.2 1 nan Resistance or Tolerance Salinity tolerance RM1 RM5
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