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

>Osa06LNT0354900.1

AACTCAAGTGCCTAGCGAGCTCCACGGAGTACTTATTAATATCGTTCTCTGACGCAGAAATGCGTCATGTGATACATGAGAGAGGTATTCAGAACACATGAGATTACAAACAAACACCAAAAACTTGTTCAAAACCGAACAAATATCATCCATCTTCTTCATCCTGCAAATCTGTAGCAGATTCATCCTTCCTGCGGCCTGAGCTTGGCTGCGTCGATGTAACCCAGCCTCGCCGCGCAGCCGACGCTGCCGTCGAGTATCTCCTCCATGCCGTACTTGTACCTGAACCCCAGCTCACCCAGCTTGTCTGCCGCCGGCTGCACCCTCGCCACCTCCCTCTCCGGCTCTTTGAGGACGTCGAGGTGAGGGTACTTGGCGGCGAAGTGTTCGACGATGTCGTGGATGGTCGGGTAGGCGGCGGAGCAGAGGAAGCGGCCGGCGAGCGACGGCTGATCCATGCAGAAGACGAGCGCGTCGCAGACGTCGTCGGCGTGCACCAGCGGCACCGACCCGACCAGCCTCTGCAGCAGCCTCAGGAACGCGAAGGACGGCTCGTTCCGGGACACCGGCGACACGGCGTTCTCCAGCGTCTCCGGGGCGCGGCCGAGGACCGTGTCGCCGGCGACGAGGCCGCACGGCAGGGTGACCACCTCGAACGCCCGGCCCTCGCCGTCGTTGTAGCCCAGGAGCTCCTTCTCCGACATCATCTTCGACAGCACGTACTTGTCGAAGTGGGCGCTCCGGAGTGGGTAGTCGACGTCGAGCGGAGTCCAGCAGGACTCGTCGATGAAGTCCCTGTACCCGGCGGCGCCGACGCCGGCGCCGGGGACGTCGATCAACGGCGAGGCGGTGGATATCGAGGCGGTGTGGATGACGCGCTTCACCGTCTTGGATTCCGCGCATTGCCGGAGGATCTCGCGCACCGCGTCCACTGCCGCATCCGCCGTGTTCTTGTACTTGGAGTTGGAGGCCTCCAGCCCGTACGGCGTGGCGATGAGGAAGACGAACTGGCAGCCGGCGATCGCCGGCGCGAAGGTGGCGGCGTCGAAGAGATCGGCCTCGAACAGCCGCAGCCGCTCCGCCGCGCCGGGGACGAGCCGCCGGAGCAGCCCGGCCTTCTCCTCATCTCCCATGCTTCGCAGCGTGGCATGGACGATGCAGCCTCTCTCGAGGAGCTTCTTCACGAGCCACGAGGCGATGAAGCCGGCGCCTCCGGTGACGCACACCCGGACGCCGTCTCCGGCGACGCCGCCGCTCCTCCCCTCTTCCGCCATTGCCGCCGCCGCCCGAGTGCCAGGT

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.133428
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa06LNT0354900.1 6 26650631 T C
Osa06LNT0354900.1 6 26650672 C T
Osa06LNT0354900.1 6 26650784 A G
Osa06LNT0354900.1 6 26652144 A C
Osa06LNT0354900.1 6 26650789 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
Osa06LNT0354900.1 osa-miR5819 Cleavage 5.0 22.895 1 21
Osa06LNT0354900.1 osa-miR2907a Cleavage 5.0 23.78 1 22
Osa06LNT0354900.1 osa-miR2907b Cleavage 5.0 23.78 1 22
Osa06LNT0354900.1 osa-miR2907c Cleavage 5.0 23.78 1 22
Osa06LNT0354900.1 osa-miR2907d Cleavage 5.0 23.78 1 22
Osa06LNT0354900.1 osa-miR5499 Cleavage 5.0 14.13 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa06LNT0354900.1 6 amy6-1 Physiological trait Eating quality RM3 RM217
Osa06LNT0354900.1 6 asv6-1 Physiological trait Eating quality RM3 RM217
Osa06LNT0354900.1 6 qREP-6 Resistance or Tolerance Other soil stress tolerance nan nan
Osa06LNT0354900.1 6 tgw6.1 Physiological trait Source activity RG264 RM3
Osa06LNT0354900.1 6 ppl6.1 Resistance or Tolerance Drought tolerance RM3 CDO78
Osa06LNT0354900.1 6 nan Morphological trait Root RM4447 RM5509
Osa06LNT0354900.1 6 ph6 Morphological trait Dwarf RZ667 RG653
Osa06LNT0354900.1 6 qLDLJ-6-1,2,3 Physiological trait Source activity RM217 RM3
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