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

>Osa04LNT0284900.1

TAACAATGCATCACCCATCAGCACCATTCTATCATCCATTCCGTCTCAGCTCAAAGAATCGGCTACAAAATCCCACCACAAAACATATAAACAACAAAAAGAAACCAAAAATAAAAAGAAAAGAAAAAAAACACCCTGCATCTGCGGCCGAAATTAATTAATCGTAGTACTACTACTACGTGTTTTTCTTTCACCATCCTACCCAGCTAAGTACTCCACTTTTTAAGTAGCAGAAGATGATATGCAAGTACTACGTAAACAAGCTAGTTGACGGCGGTGCAGACGCGGCGGATCTCGCCGTCGGAGCCGGTCTTGACGCCGATCCTGCCGAGCTTGGCCATGGCGGCGACGAAGGCGTCGAAGAAGGCGGTGGAGTTGGCGGCGAAGAGGTTGACGGTGGGGCGGGAGCGGCGGTCGGTGAAGAGGATCTGGTCGGAGGCGAGGAGGCCCTTGTTGTAGCGGAGGTTGTTGAAGTAGGCGTTGTCGAACGCCCGCGGCGTCGACACGTCCAGCATCGCGAACGCCGTCGGGCTGTAGTTGATCGGGCACACCCGCCGCATCGACCGCAGGAAGTCCAGGTTCATCGGCGGGTTGTACCCCAGCCGCTGCTTGAACGTGTAGATCCGCCGCACGAACTTGTCGCAGTGCGTCACCCCGATCGTGTGCGCCCCGGAAAGCGCAATCATGTCGGTCTGCGTTAGGCCATTGCTGGCGAACAAGGAGTTGAGCTGATCCAGATTGAAGCCAGGGCCGGGCAGGACGTGCTTGACAATGGCTCTGTTGAACGTCTTGCCGTCCAGCCGTCCGAGCTCCACGGAGTAGCTCGGCCCGCCGGTCAGGGAGACGACGTCGCGGGCGGCCATGGCGAGGATGTCCGCGCAGGAGACCTTGCCGGCGCAGCCGGGGAGCGCCTCGACCGCCGCCTTGGCCTTGTTGATCGCCTCCACCGCGTCCGGCGACAGCGTGGCGTCCGCGCCGCTGTGGCTCTCGTCGTCGCCGTTCGGCGCCATCAGCATCACCGACGCGTCACACCCCCTGACGAAGCAGTCGTGGAAGAAGAGGCGGAGGGTGCCGGGGCCGACGGCGAAGCTCTGCTGGAGGTGCTGCGAGATGACGGACCGGACGGTGGACTCCGCGTTGGGGCACGTGCTGCCGTAGTAGTTCTGCCGCAGCTGGGCCCTCGCGCCGCCGCCGACGCCCACAAGCGCCACGAATGCCACGAGCGCCGCCCGCGCGAGAAGCCCCATGCCGCCGCCGCCGTGCGCCGCCCTGGCCATCGCCGAACAAGCTCAGGCTCAGCTCGGCCCGGTGTGTGTGTGACAGCGACACAGTGTGTGGTCTGCTTTGAGGGTGGTGGTGGGACG

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.432984
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa04LNT0284900.1 4 33501248 T C
Osa04LNT0284900.1 4 33501277 G A
Osa04LNT0284900.1 4 33501622 G C
Osa04LNT0284900.1 4 33501751 C A
Osa04LNT0284900.1 4 33502491 T A
Osa04LNT0284900.1 4 33502755 A C
Osa04LNT0284900.1 4 33503279 T C
Osa04LNT0284900.1 4 33504026 A G
Osa04LNT0284900.1 4 33505953 C T
Osa04LNT0284900.1 4 33501046 C T
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa04LNT0284900.1 osa-miR5544 Translation 3.5 16.458 1 22
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa04LNT0284900.1 4 np4 Morphological trait Panicle/flower RG143 RG214
Osa04LNT0284900.1 4 tgwt4 Morphological trait Seed RG143 RG214
Osa04LNT0284900.1 4 np4 Morphological trait Seed RG143 RG214
Osa04LNT0284900.1 4 tgwt4 Morphological trait Seed RG143 RG214
Osa04LNT0284900.1 4 nan Morphological trait Panicle/flower RG143 RG214
Osa04LNT0284900.1 4 nan Physiological trait Source activity RG143 RG329
Osa04LNT0284900.1 4 gpp4 Morphological trait Seed RZ569 RZ565
Osa04LNT0284900.1 4 nan Morphological trait Panicle/flower RG620 RG214
Osa04LNT0284900.1 4 QGn4 Morphological trait Panicle/flower RG143 RG214
Osa04LNT0284900.1 4 QGwp4 Physiological trait Source activity RG143 RG214
Osa04LNT0284900.1 4 rpf4.1 Resistance or Tolerance Drought tolerance RG214 RG620
Osa04LNT0284900.1 4 nan Morphological trait Root RG214 C1016
Osa04LNT0284900.1 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