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

>Osa06LNT0335000.1

TTAAGGTATACATAAAAAAGACGTAAATATTAGGGAAGGACCTAATATCAAATAAATAGAAGGGGTAAGGCTTCGAACCCTAGTCGTCTAACCCACCACCTTGTGAAGATATTCATAAGATCCCTGGGTGTTTCTCAAAAGGTATACATAGGATATAATCACTCCTTTTTTCTTAAGCGGGGCCTCACCGTGGCCTTTGGGCATCGCCTTCTTCGGACATCGACTTGACGGGGATTCATCGTCAAGAGATGGGTGCACCACATGAGTGACCAGCGAAGTATCCCCTCCCGGTGGCAGCGATTGTGTGAGCCCCCTGGCGACTGGAGGAAGCTTACTTTTAATATTTGGCGCCGATAATAACCTTGGTGGAATCTGAGAATTCATGCTAGTATGAACACAGCTTCCCAATCAGCCAGTACACAGTAATCACAGTGGTGGCGCCAGCTCATGCATACTTTGTCAATTGTCACATGCTGTTGCATATCTTGTCAATAGCCAAATACCACCTGTTTTTCCAGCATTTGTAGCTACTTCCCTCTTCAAAGTCTGAAGTGAGCCACTTTTGCTGCTTCTTCATAAGCTTCATGTCTGCTTGACA

Coding Potentia
Explanation CPC Score
noncoding -1.36126
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa06LNT0335000.1 6 6477774 T C
Osa06LNT0335000.1 6 6478168 A C
Osa06LNT0335000.1 6 6477926 A 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
Osa06LNT0335000.1 osa-miR6248 Translation 4.5 14.732 1 21
Osa06LNT0335000.1 osa-miR164a Cleavage 4.0 18.472 1 21
Osa06LNT0335000.1 osa-miR164b Cleavage 4.0 18.472 1 21
Osa06LNT0335000.1 osa-miR164d Cleavage 4.0 18.472 1 21
Osa06LNT0335000.1 osa-miR164f Cleavage 4.0 18.472 1 21
Osa06LNT0335000.1 osa-miR535-3p Cleavage 5.0 19.014 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa06LNT0335000.1 6 nan Physiological trait Eating quality RM276 RM549
Osa06LNT0335000.1 6 nan Physiological trait Eating quality RM276 RM549
Osa06LNT0335000.1 6 nan Physiological trait Eating quality RM276 RM549
Osa06LNT0335000.1 6 amy6-1 Physiological trait Eating quality RM3 RM217
Osa06LNT0335000.1 6 asv6-1 Physiological trait Eating quality RM3 RM217
Osa06LNT0335000.1 6 sd6 Morphological trait Panicle/flower RG138 RG64
Osa06LNT0335000.1 6 tns6 Morphological trait Panicle/flower RG138 RG64
Osa06LNT0335000.1 6 tns6 Morphological trait Seed RG138 RG64
Osa06LNT0335000.1 6 sd6 Morphological trait Seed RG138 RG64
Osa06LNT0335000.1 6 S5 Physiological trait Sterility RG213 C235
Osa06LNT0335000.1 6 qLDLJ-6-1,2,3 Physiological trait Source activity RM217 RM3
Osa06LNT0335000.1 6 nan Morphological trait Panicle/flower RM276 RM121
Osa06LNT0335000.1 6 nan Physiological trait Eating quality RM253 RM162
Osa06LNT0335000.1 6 nan Physiological trait Source activity RM276 RM121
Osa06LNT0335000.1 6 spf6 Physiological trait Sterility RG213 RM557
Osa06LNT0335000.1 6 qGT-6 Physiological trait Eating quality RM276 RM121
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