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

>Osa06LNT0335900.1

CATCTAAATTTGGCTATTTCTTCCATTGTGGCATTAGCTTTTTCGAACCCCTTTACATAAGTTGATCATGAATCAGGATTAGACAACTTCTCTAAAATAAACAGGTTCTAAAAATGGATTGAACAAGCAACTATAGCAAATTGGAGGAATCATCCCATTAAAAACAATAGGAGGAATGACCCAAATCAACAGTTGCTAACATCTAAATCTTTTTTTTTTCTCTGATTCTTGTGACAGAGCTGAGTCACATTTTTCTATTTGCCGGAACAAGTTTGACAAGCTTTGCCAAATCATAAGACTTGAAATCTCTTCCAAAACACAAGCTTATATCCAAGGCAGTCCTTCCATCCTTGGTTCTTCTCGTCTTATCTGCACCATTGACAAGCAATATCTTTGCTATATCTCTATTTCTACTCTGTATAGCTAAATGCAACGGTGTCCAGCCATCATTATCAGCAACATTGACATCAACCCTATTCTTAATCAGTAACTTCACAGTTTGCAGGGCACCAACTTGAACTGCATAATGTAATGGTGTGGCTCCATCCCTATCTCTGACATGAGGATTTGCCCCTCTTCGCAGGAGATGGCTAATGACGGCCTCCTTTTTGCCTATGACAGCCTTGTGAAGTGGGGTGAAACCATCTTTGTCAAGTAAATTGATATCGACACCACTATCGAGCAGGCTGTCCATGAGAGGTATCTGCAGCGCCAATGCGTAACTATGAAGTGGATGCCATTTCGGTGATGATATTTTGGTGATATCCGGGGTCTCGTTCTGATCCAGGATAGCCATTTCTTCAGGCGTCAAGAGAAGCTCGATTTCTCCTCGAAGCTCCTCTTCTTCTCGCTGCTCTTGCCGCCGCGCGGCGCCGAGCCTGGAGAACAGCGAGGGGGAAGGGAACGAGGAGAAGCTGCT

Coding Potentia
Explanation CPC Score
noncoding -1.15424
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa06LNT0335900.1 6 7121504 T C
Osa06LNT0335900.1 6 7122630 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
Osa06LNT0335900.1 osa-miR5528 Cleavage 4.0 12.316 1 21
Osa06LNT0335900.1 osa-miR171a Cleavage 4.5 14.386 1 21
Osa06LNT0335900.1 osa-miR171b Cleavage 5.0 14.386 1 21
Osa06LNT0335900.1 osa-miR171c-3p Cleavage 5.0 14.386 1 21
Osa06LNT0335900.1 osa-miR171d-3p Cleavage 5.0 14.386 1 21
Osa06LNT0335900.1 osa-miR171e-3p Cleavage 5.0 14.386 1 21
Osa06LNT0335900.1 osa-miR171f-3p Cleavage 5.0 14.386 1 21
Osa06LNT0335900.1 osa-miR171i-3p Cleavage 4.0 14.386 1 21
Osa06LNT0335900.1 osa-miR2055 Translation 5.0 23.969 1 21
Osa06LNT0335900.1 osa-miR5161 Cleavage 5.0 23.683 1 20
Osa06LNT0335900.1 osa-miR2275c Cleavage 2.5 16.758 1 23
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa06LNT0335900.1 6 qGY6-1 Morphological trait Seed RZ667 RG424
Osa06LNT0335900.1 6 qLVBSL6-1 Morphological trait Panicle/flower RZ667 RG424
Osa06LNT0335900.1 6 qLVBTL6-1 Morphological trait Panicle/flower RZ667 RG424
Osa06LNT0335900.1 6 qSL6-1 Morphological trait Culm/leaf RZ667 RG424
Osa06LNT0335900.1 6 qTL6-1 Morphological trait Culm/leaf RZ667 RG424
Osa06LNT0335900.1 6 nan Resistance or Tolerance Lodging resistance C1478 R2171
Osa06LNT0335900.1 6 nan Physiological trait Eating quality RM253 RM162
Osa06LNT0335900.1 6 nan Morphological trait Panicle/flower RM276 RM121
Osa06LNT0335900.1 6 nan Physiological trait Source activity RM276 RM121
Osa06LNT0335900.1 6 qHD-6-1 Physiological trait Flowering RG424 RZ667
Osa06LNT0335900.1 6 qPH2-6-1 Morphological trait Dwarf RG424 RZ667
Osa06LNT0335900.1 6 qTN2-6-1 Morphological trait Culm/leaf RG424 RZ667
Osa06LNT0335900.1 6 spf6 Physiological trait Sterility RG213 RM557
Osa06LNT0335900.1 6 qGT-6 Physiological trait Eating quality RM276 RM121
Osa06LNT0335900.1 6 amy6-1 Physiological trait Eating quality RM3 RM217
Osa06LNT0335900.1 6 asv6-1 Physiological trait Eating quality RM3 RM217
Osa06LNT0335900.1 6 qPSP-6 Physiological trait Flowering R2171 RZ144
Osa06LNT0335900.1 6 qSFWd6 Resistance or Tolerance Other soil stress tolerance RG424 RZ667
Osa06LNT0335900.1 6 qPHw6-2 Resistance or Tolerance Other soil stress tolerance RG424 RZ667
Osa06LNT0335900.1 6 sd6 Morphological trait Panicle/flower RG138 RG64
Osa06LNT0335900.1 6 sd6 Morphological trait Seed RG138 RG64
Osa06LNT0335900.1 6 tns6 Morphological trait Panicle/flower RG138 RG64
Osa06LNT0335900.1 6 tns6 Morphological trait Seed RG138 RG64
Osa06LNT0335900.1 6 qLDLJ-6-1,2,3 Physiological trait Source activity RM217 RM3
Osa06LNT0335900.1 6 ph6 Morphological trait Dwarf RZ667 RG653
Osa06LNT0335900.1 6 qRS6-1 Morphological trait Shoot/Seedling RZ667 RG424
Osa06LNT0335900.1 6 S5 Physiological trait Sterility RG213 C235
Osa06LNT0335900.1 6 nan Resistance or Tolerance Blast resistance C1478 R2171
Osa06LNT0335900.1 6 gp6 Morphological trait Panicle/flower RZ667 RG424
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