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

>Osa04LNT0285200.1

GAAACCGGAGATAGTGTTATTATAACTTATGGGGAGATAGATTTCGATCATTTTTAAATGTTACCATAAGCTCATACAGGTCATAATTGTTATAACTTATTAACTACTTCTTCCTTTGATGAATTTTCTTCAGAAATGATATCAGGATCTCCCGTGCTGCATGATCCTTCTGAGCTTCGATAGAGGTGACCAGGTGGTTGTAGCATCGACGTTCGAACTCGGAGAAGATATCTTTCAAATCAAGCGCCGCGTAAGTCCTCTTTACTTCGGAAACAGAACTTGAATCCTTCTTGCCATAGTTCCTATGTAGTACTTCTATTTGATTGTTGTCAGCATGACCAAGAGCCTGTACTATTAACCAGGAACACTTATGATCTTCGATGTCAGTTCCAATCTTGCCTATGGTGTTAGGGTCAGCAAAACAGTCCAAGTAGTCATCCTGTATCTGAAAATATATGCCCATTTCAATAAGTATATCCTTTAGACCACTGAAGTCTTCAAGTTTTGCGCCAGATAAGAGCAAAGCATTGGCCACTTCATTCTTCCTCAACATGTTTTTCCTGCACCTTTTTTCAAGAGTTTGCCGCAAAGAAACCCCTCTATTTATCTGATTCATATGATATCGTGAACTTGAAGAACTTGTACAGTTCTACAGCCTATATTCAGATACATGACGTTATGACAAGTGAAAAGTAGGACTGCATCTGAGTTTCGGTCTTCCAGACTTACAGGAAGGTAAAAGGAGTAGTACGCTGTCTTGTACTTAACAATGCGACGGTAGCCTTCAATACTGTATTTTGCAAGATCATCTGCTCCAGTATGTGTGCTAATAAGATCAAGCATCTGCCCCAGAGAAGTCTGCAGAGCTATCTCGCTCCATATTTCTAAGATATCAAGAAAGTAAGGCTTTTCTCTGAAATACTTTTTTATCATTATCAAGATGTGACATTTTAGTATGATACCATCGTTTATACCCCTGAGGCCAACCTGTAACAGAAATATAGGTGGAAGAACTAAGTGGCCTGTTTTGTTACAGCTTATTAAGAGAATCAGAGTATCATGTGAAGATGGGTTGAAGAACCTCAGGTCGCCGGTACCAGCAAATCTGATCTCTCCTGGTATGTGAATCGTCCATGATGTCATCAAGTAGTAGTGCACATGCTTGAAACCATTCTACACACCAACCAAGCACACAAGCAAGGAAGAAGTCATCTTCAGTAACCTCACTTCCTTGTTTCAACAGCAGGTAACTGTCTATCACTGACAGCCCTCGGTTCAACTTTCCTTTAGAGAAACAGAAGATTGCATTGAAAATTTTGTGACTTGAGAGTTGAGACACTTGTAAAAGGTTTTTTCTCTTTTTTTTTTTTTCAAAACCGAAACTCAGCTAGATTCACTTGCACTCTCTGAATGTAAAGTGTGCACTATATTTTTTTAACACTTGTCCAATTTTCAGATCAGAGATGTTCAGACTTGCAATGCTTTAGAAGATGCCTCCTCACCTCCAGGTACATTGTAGTCGATCATCTGAGCAAGCCAGCGCCTGGCTTCGTCGGTGAGCTCGCACGAGTCGTCGCCGACGAGATCGTCCCTGAGGCGGCCGTACGCCTGCACGAACCTCTCGCGGGCGTCGACGATGCCATGATCAGACCGCCACCGCTGCTCCTGCCTGGTGCATTTCGCCGGTGAGGCATCGCCGCGCAACCTCAGCTTCTCCTTGAGCTCGCGTTCCAGAGCATCGCTCCGGCCGTCGTCGTCTCCAATGCGGAGCATCTCCTGCATGGACATGGTTAGTTCTTCTTCCCTTTTTCACGTTGATGTCAGTAGCTGTCTCGATCGATCTGTGGTGATGTTGCTTGTGATTTGCGAGGT

Coding Potentia
Explanation CPC Score
noncoding -1.24458
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa04LNT0285200.1 4 33517369 T A
Osa04LNT0285200.1 4 33517379 T C
Osa04LNT0285200.1 4 33518419 T C
Osa04LNT0285200.1 4 33519793 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
Osa04LNT0285200.1 osa-miR5817 Cleavage 4.5 8.188 1 24
Osa04LNT0285200.1 osa-miR5512b Cleavage 5.0 15.916 1 21
Osa04LNT0285200.1 osa-miR438 Translation 4.5 15.916 1 21
Osa04LNT0285200.1 osa-miR1856 Cleavage 5.0 14.353 1 21
Osa04LNT0285200.1 osa-miR2872 Translation 5.0 20.476 1 21
Osa04LNT0285200.1 osa-miR5155 Cleavage 4.5 18.878 1 24
Osa04LNT0285200.1 osa-miR5512a Cleavage 5.0 15.916 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa04LNT0285200.1 4 np4 Morphological trait Panicle/flower RG143 RG214
Osa04LNT0285200.1 4 tgwt4 Morphological trait Seed RG143 RG214
Osa04LNT0285200.1 4 np4 Morphological trait Seed RG143 RG214
Osa04LNT0285200.1 4 tgwt4 Morphological trait Seed RG143 RG214
Osa04LNT0285200.1 4 nan Morphological trait Panicle/flower RG143 RG214
Osa04LNT0285200.1 4 nan Physiological trait Source activity RG143 RG329
Osa04LNT0285200.1 4 gpp4 Morphological trait Seed RZ569 RZ565
Osa04LNT0285200.1 4 nan Morphological trait Panicle/flower RG620 RG214
Osa04LNT0285200.1 4 QGn4 Morphological trait Panicle/flower RG143 RG214
Osa04LNT0285200.1 4 QGwp4 Physiological trait Source activity RG143 RG214
Osa04LNT0285200.1 4 rpf4.1 Resistance or Tolerance Drought tolerance RG214 RG620
Osa04LNT0285200.1 4 nan Morphological trait Root RG214 C1016
Osa04LNT0285200.1 4 gpps4.1 Resistance or Tolerance Drought tolerance RG214 RG620
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