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

>Osa06LNT0349100.1

CTTCATCGCATACATTTGAATAAGGCTCCAAAGGGGTTTATATTATAAAATAATAGGACATTTACAAGTTTGTGGCTAACTAATACAACAGAAGCTATAGAATGACTTAATCCTAATGTTTTGCTATAGACTTAAACCATCTAACTACACTAGACTTGAAGATTAGGTTTAAAGGGAACTAACTTATGTGATTGAACTCCCAGCTTCGGCAAAAACTCCAATTAAACTCTGAAAAAGAGGGGTTGAAGCAAGGGTGAGTACAACGTACTCAGCAAGCTATTATATTAACCAATAATGAATATATGAAATGGTAATATCTGTGTAGAGCTAGGTTTACTTGCAGAAAGCTGAGAATAAAGAGGTAGAAATCCTGAAATGCTTGATATGCAACAGTATTTAAGAAAATCTTGAATTATATTTCTAACCAAAGTACCATATGAGTCCCGATGCTCAATCCGTGAGCACGGCTATTCGAATAGATTCAAGGATATTCATACTGCAGTAGATGTACGCTTTACCCGCAGTCCACGACTTGCCAATAATCATTAGCTTAGTCATGGCCCAGTATTAGGTTATTAACAATTGTGGCACCTGTTCCATGAACTCTAATCCCCATGCGCTCTGAATGTAACGTTATCAGCAGCGAGAGGAGTTCTGGCGTTCCCGGGGTTTTTAGAGAGAACTGGATGAGAGACCCCATGTCATCTCAACCAGGTTTTCATAAATTCACACACACATCGCGCGATAATCAAGATATTTACCTGCGCCTCGGTAAATATCACATTTGCCCTTCGCGGCATATATTTGCCTCCTTCGCGAGGACTTACATAAGAACCACTGTACAGAGGTACCACATTGTTAATTAACATAATATCTAGGTCTGTCCCCATTCTAGAAGCTGCGGTCGTACTCGTTCGTTTGACATAAGTACTTGGTAAACTTATATCGACCGAGACAGTACTAGCCACCCGGAAATCAACCAAATCTTGCGTACTGTCCCAATCTAAGTTCATTATGTTTTATGCAATCTAACTAGGCAGGGCTAAGCAAAAGCTAGCATATAACTGGTTTGCTATATGTTCAGATTATGCATTCAAAATCATGAATGGCTAATGCATAGAATAGAGATATAGAATATAGGATAATTATGCTCAAGGGGAGGAATAATAACTTGCCTTGCTCCAACGCAAATGAATCCAAGATAGGCAACCTGATTATACGATTCTCGAAATACCATAGGTTGCCATCCAAAAGATAATAGTCTTTACTGTCAGTCTTTCTTTTTCTTTTTCTTCTCCTTCTTCTTCCTCCCGTTCCTTTCTTCTTCTCTTTCTTGCCGGCAACAGAGAAGAGGGAGGGAGGTGGGGCGCCGGTGCTCTGATGGTGGAACGGCTTCGACGGCGGTGGCCAAGCGTGTTCCCGAGCGACGCGCACCCGGGGAAGTCGGTGGCTGGCCGAGAGAGGGAGGAGTTGGCCGGAACGGCGAGTAGAAGAGCTTGGTTTCGGCCGGTATAGGGGGCGGCGGTGGTGGCTTAATTCGGAGGGGAAGAGGAAGGGAAAGGTTAGGGAATGGATTTGCCTCGTCGAGGCGAAGGTAGTGGCGCGAGGGCTTGGTCGGAAATGCTCCGACGAGGGAGATCGGCCGATGGCCGGCATTTGGAAGAGAGAGAGAAGAGAGAAGCTCGGG

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.151304
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa06LNT0349100.1 6 21940776 T C
Osa06LNT0349100.1 6 21940687 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
Osa06LNT0349100.1 osa-miR5811 Translation 4.5 12.607 1 24
Osa06LNT0349100.1 osa-miR7694-5p Cleavage 4.5 14.587 1 24
Osa06LNT0349100.1 osa-miR156c-3p Cleavage 4.5 17.14 1 22
Osa06LNT0349100.1 osa-miR156f-3p Cleavage 5.0 17.14 1 22
Osa06LNT0349100.1 osa-miR156g-3p Cleavage 4.5 17.14 1 22
Osa06LNT0349100.1 osa-miR156h-3p Cleavage 5.0 17.14 1 22
Osa06LNT0349100.1 osa-miR156l-3p Cleavage 5.0 17.14 1 22
Osa06LNT0349100.1 osa-miR164e Translation 5.0 16.159 1 21
Osa06LNT0349100.1 osa-miR167h-3p Cleavage 3.5 15.82 1 21
Osa06LNT0349100.1 osa-miR2919 Cleavage 3.5 12.214 1 19
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa06LNT0349100.1 6 RPLD4 Physiological trait Eating quality RG424 RG172
Osa06LNT0349100.1 6 nan Physiological trait Eating quality RM253 RM162
Osa06LNT0349100.1 6 amy6-1 Physiological trait Eating quality RM3 RM217
Osa06LNT0349100.1 6 asv6-1 Physiological trait Eating quality RM3 RM217
Osa06LNT0349100.1 6 tgw6.1 Physiological trait Source activity RG264 RM3
Osa06LNT0349100.1 6 gw6 Morphological trait Panicle/flower RG424 R2549
Osa06LNT0349100.1 6 ph6 Morphological trait Dwarf RZ667 RG653
Osa06LNT0349100.1 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