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

>Osa04LNT0287200.1

GCTTTCAAACAGGCATAGTTGCAAGGAAAATATTACTGTCATCACAAGGCTTGCCTTGTGTTGCTTTCAACAAGCATAGTTGGCTACAAATAAATGTGTATTGGTTTATTGGAAGCTTTCTCATTTAAGAATAACAACCAGCACACTCATCGATCATGGCATCATGCAAGATCGATGATGAATCACCTATACAATTGAGTGCTATATCAATATAATTTTGGTAACCCGATTGAACTACTTCTAGAGGTACAAGGAATACTCATTACTTAACTACTTCTGGCGTAGGGCTACAAATACATAACGAACATTCCTAAAGCAAAAATCATGCTGCTGCAGATCTTTCATTGCCAGGGTCTAAATTCAATGCTTGCAGTAACTTCGGCCATGATTCTGGAATTCCTCCTGGTAGATTGAACTCCAATAGTTTACCACGTGCTCTGTAGAAGTCCTCCACTGGCTCACACAAATCATGATAAACACGCAATCGCTCCTTTACCACCTCTTCAGTATCATCAGGCCTAGTTATCAACTTTGATTCACACTGTGGAGGAGGCAGTAGTGGAGGCATGTACATTCGAGGACCACCATTTTCGCCCTCCATATCAATGGACGCTACATTAAAATTTCCACCACACTGGCTGCACATCCTTCTACCAAGGCATTTTGCAAGCAGAGCCTCTTCTCGGAGTTTGAGGTTGATGACCAAATCAATATCCGTGACTCCTTCAAGTATCTCCGCTTGTCTTATGGTTCTTGGAAAACCATCAAGGATGAAGCCCAGCTCACCCTTTTCTGCTCCCTCTTCAAGCCGCTTTGACAGAAGATTTATTATGATCTCATCCGACACTAGCTTTCCATTATTCACAATCTCCGCAAGCTGCTCGGAGAAGGGGCCCGGGGAGGCGAGGGCGTCGCGGACGAGATCGCCGGTGGCGATGTGGGGCACGCGGAGCATCTGCGAGAGGCGGCTGGCGTAGGTGCCCTTCCCCACCCCGGGGCAGCCCAGGAACACCCACTGCACGCGCCTCCCGTCCTCCTCCCGCTCCCGCTCCCGCCCGCGCCGCGCCACCGCCGCCGCCGCCCGCGCCCCGGCCGCCGCCACCTCCTTCGCCGACGACGCCATGCTCCGCCGGGACCCCGCGGCGGCGCACGCCCGGATCGCGCGCGAGATCGCCGCCATGGGAGAAGCGAACGAATGGACAGAGATTTTTTTCCCCCGATTTTCTGTTTGTTTTTCGTGTCGGAGTAGTAGTATTTTTTTGACTTTGCCGTTTGAGATTTTTTTTTTTTGATCTCTTGGAGTTCGGGGAAAGCGTTAGGTATAGAGAGGCGTAGCGTGGGTAGCGTGGCTTAAGCGGTGCGCTCACGTGCGTCAATAGGAAAAGGGC

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.840007
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa04LNT0287200.1 osa-miR5541 Translation 5.0 13.398 1 21
Osa04LNT0287200.1 osa-miR5828 Translation 5.0 15.334 1 21
Osa04LNT0287200.1 osa-miR6256 Cleavage 4.5 18.834 1 22
Osa04LNT0287200.1 osa-miR2879 Translation 5.0 16.218 1 24
Osa04LNT0287200.1 osa-miR2275c Translation 4.0 17.5 1 23
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa04LNT0287200.1 4 gpps4.1 Resistance or Tolerance Drought tolerance RG214 RG620
Osa04LNT0287200.1 4 np4 Morphological trait Panicle/flower RG143 RG214
Osa04LNT0287200.1 4 tgwt4 Morphological trait Seed RG143 RG214
Osa04LNT0287200.1 4 np4 Morphological trait Seed RG143 RG214
Osa04LNT0287200.1 4 gpp4 Morphological trait Seed RZ569 RZ565
Osa04LNT0287200.1 4 tgwt4 Morphological trait Seed RG143 RG214
Osa04LNT0287200.1 4 nan Morphological trait Panicle/flower RG143 RG214
Osa04LNT0287200.1 4 nan Physiological trait Source activity RG143 RG329
Osa04LNT0287200.1 4 QGn4 Morphological trait Panicle/flower RG143 RG214
Osa04LNT0287200.1 4 nan Morphological trait Panicle/flower RG620 RG214
Osa04LNT0287200.1 4 QGwp4 Physiological trait Source activity RG143 RG214
Osa04LNT0287200.1 4 rpf4.1 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