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

>Osa06LNT0334800.1

TTGAGTTAACGAATTGATCACTAGCTATATTAAGATTCTTAATTATCTTACATTTTACAGGAGTGACAGGCCCTGCTAGTCATACAGGGGATTTATACACATTCTTGAGTAAAGGACTAAAGAGTGGTTACGCTGCAGCTTAATTTGCACAGCTTAATTACAAATAGTACATATTCCTAGGGGTCGACATGATAGAGGGTTATTGATGGTACAATGACTAGTTGATTAGTTAATTAGTTACTAATTAACTAACTGATTGACTCATTAAACATGCTCAAACTTCTTCAGAAGTCAGAGCTAGCTTAGCAGGGAAGACTGTCATATAGTATATATGATCCGTCGTCAGTGTACTAATTAAACCCTCGGGCGCATCGCTGACGATGATCGCCGAAGCTTCCACTGCACCAATCGAACAAGGAACTCCATGACCTCTGCTGGGTCCTGGAGAGAGTACGAGGCGTCAGTCTCCTTGGCACACTTGGAGACAAGAATTCCCAACCCTTGACCTCTCTTTCTCAACACCTTGAAAGCATCTTCGTCGGTCCGGTCGTCTCCGATGTACACCGGCAGGACGTCGCGGCGGTCGTCGTCGAATCCGAGAGATTTCAGCAAGAACTCCACCGCCTTGCCCTTGTCCCACATGATCGACGGCCGGATCTCCAGGACCTTTCTTCCTTGGGTGAGTTTGAGCTCGGGGTAGTCCCGGAGCACGGCCTTCACTTGCTCTGCCAACGGATTCCATCTCTTCTCATCGACGCATCTGAAGTGCACGGAGAGGCAGAACTTGTTGTTCTCCACTCTGGCCCCAGGCGTGCTCTTCGTCTTCTCCATCAAAGCCTTGTAAGCCTTGTTGATCACCGGGAGGAACTCGCGAGCTGGCTGCAAGAGGATCT

Coding Potentia
Explanation CPC Score
noncoding -1.05354
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa06LNT0334800.1 6 6277974 A G
Osa06LNT0334800.1 6 6277733 G A
Osa06LNT0334800.1 6 6280419 G A
Osa06LNT0334800.1 6 6280780 T 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
Osa06LNT0334800.1 osa-miR171b Translation 4.0 18.303 1 21
Osa06LNT0334800.1 osa-miR171c-3p Translation 4.0 18.303 1 21
Osa06LNT0334800.1 osa-miR171d-3p Translation 4.0 18.303 1 21
Osa06LNT0334800.1 osa-miR171e-3p Translation 4.0 18.303 1 21
Osa06LNT0334800.1 osa-miR171f-3p Translation 4.0 18.303 1 21
Osa06LNT0334800.1 osa-miR2103 Cleavage 4.5 23.926 1 22
Osa06LNT0334800.1 osa-miR2929 Cleavage 4.0 16.341 1 21
Osa06LNT0334800.1 osa-miR5514 Translation 5.0 17.191 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa06LNT0334800.1 6 nan Physiological trait Eating quality RM253 RM162
Osa06LNT0334800.1 6 nan Morphological trait Panicle/flower RM276 RM121
Osa06LNT0334800.1 6 nan Physiological trait Source activity RM276 RM121
Osa06LNT0334800.1 6 qGT-6 Physiological trait Eating quality RM276 RM121
Osa06LNT0334800.1 6 nan Physiological trait Eating quality RM276 RM549
Osa06LNT0334800.1 6 nan Physiological trait Eating quality RM276 RM549
Osa06LNT0334800.1 6 nan Physiological trait Eating quality RM276 RM549
Osa06LNT0334800.1 6 amy6-1 Physiological trait Eating quality RM3 RM217
Osa06LNT0334800.1 6 asv6-1 Physiological trait Eating quality RM3 RM217
Osa06LNT0334800.1 6 AsTol Resistance or Tolerance Other soil stress tolerance RZ516 RG213
Osa06LNT0334800.1 6 sd6 Morphological trait Panicle/flower RG138 RG64
Osa06LNT0334800.1 6 sd6 Morphological trait Seed RG138 RG64
Osa06LNT0334800.1 6 qRCRJ-6 Physiological trait Source activity RM217 RM402
Osa06LNT0334800.1 6 tns6 Morphological trait Panicle/flower RG138 RG64
Osa06LNT0334800.1 6 tns6 Morphological trait Seed RG138 RG64
Osa06LNT0334800.1 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