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

>Osa06LNT0352600.1

CTCAAATTCTGGTTCATTATGAAATATAATGCCAATGGGCAAAACAAGATCAACAAACCGGTGGAAGCATCAGAAAGCACCCAAGTAAATGGAATCATTGTAGTTTTGCTAGGTTATATAGTGCATTCGAAGCATTACAAAATTTGACTGAAGCGCCGAGGGAAAAACTCCAAGGTAATTCTACAAATCAAAGACACCGAAATTCCCTGTTATCTATTTCCTCCCAGATTACATCCAGTTTCCTCCCATGACAAAATATCTCATGCTGCAGAAGCAGCAACAATGCACATATCATTTTCACCTTGTGTGCAATCGTTTTCATATTTGGAGCTCAGGTATGCTGGCCGTCTAGTCCAAGCCACGACACGCATGTCTCAAGCAGCAGCCGGCGGCTTGCGCAGCTCACTTTCACCATGGGCGAAATGACACCTGTCTCCAAACGTGCAGGAGCCTTTGTTGAAGTTCTCACACAGCTTGGTCTTGAAGTTGCTTCCAGGCCCCCCAGCATGCGACCCCCTGCCCGGGTTCTTGGCTGGAGGGGCATTACCACTGATGCGGACGATTAGCTCCGTGACCATAGCACTAGCATGTTTGATCTGGTCAAATGTACCCTCAAGCTCGATATTCTTGAGGTTGGGGTTGGACTCGTTATCCCGGATGGCTAGCTTGGCCCCAGTCATCCGGGATATATGCTTTGTGTTGGTTCCACCCTTCCCAATGATACCGCCAGCCAGGGATGCATCAACACTGATCTTTGCTGTGGCTGAGGCACCAAAGGTTGAGGGAGGAACGATGTCCGGGCCAGGCATTGGTGGAGCCTCAAACGGCATTGATCCCATTGGATGTGGCATTGAGTTGTCCAGCAGCATCGGCTTTCCAAGCTCCCTCTCTCCATGAGCAAAATGACACTTGCTACCCCATTTACATCCTTCTGCAGTGTTGTACTTGTTACACATGCGAGTTTTCACGCTGGATGTAGGTGGCCCATTAGGAGCACCAGGTCCTAAAGGCATTCTTCCAGGAGGAGCTGCAACAGCTGTCCCACCATGGCTGGTCATCTTTGCAGCAGCCTGGTAGCCACCAGGGAAGTTATGGAGAAAATGACAACTTGAACCAAAAGGACAGCCAGAAGTACTGAAAAATTTGGTGCATGGCTTCAATTTGCTTCCTACACCCACTTGAGACGACTCCGATGCTCTCGCGCGCTTGGCGGCGCCGTTGGTGCCCTCCGGGGCGGCCCGCTTGCCTCCTCCGGCTTCCATGGCGTCGACGGCGAGGGCGGTGGGCGGGCAAAACCCTAGATAGGGTTTGCTCCCTCCCTCTCTCTCTCTCTCTCGCGGCGGGTGGAGTCGAGCCGAACAGGAGACGAGACGCGAGG

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.849427
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa06LNT0352600.1 6 24810278 C T
Osa06LNT0352600.1 6 24809384 A G
Osa06LNT0352600.1 6 24808883 G A
Osa06LNT0352600.1 6 24811870 C 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
Osa06LNT0352600.1 osa-miR5823 Cleavage 4.0 6.307 1 24
Osa06LNT0352600.1 osa-miR396a-5p Translation 4.5 15.672 1 21
Osa06LNT0352600.1 osa-miR396b-5p Translation 4.5 15.672 1 21
Osa06LNT0352600.1 osa-miR396c-5p Translation 4.5 15.672 1 21
Osa06LNT0352600.1 osa-miR1432-3p Translation 4.0 19.913 1 21
Osa06LNT0352600.1 osa-miR1857-5p Cleavage 5.0 19.238 1 21
Osa06LNT0352600.1 osa-miR2864.1 Translation 4.5 15.614 1 21
Osa06LNT0352600.1 osa-miR2864.1 Translation 5.0 9.93 1 21
Osa06LNT0352600.1 osa-miR2863c Cleavage 4.5 14.932 1 24
Osa06LNT0352600.1 osa-miR5539a Translation 5.0 18.06 1 22
Osa06LNT0352600.1 osa-miR5539b Translation 5.0 18.06 1 22
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa06LNT0352600.1 6 amy6-1 Physiological trait Eating quality RM3 RM217
Osa06LNT0352600.1 6 asv6-1 Physiological trait Eating quality RM3 RM217
Osa06LNT0352600.1 6 qDLR6-2 Resistance or Tolerance Other soil stress tolerance RM1340 RM5957
Osa06LNT0352600.1 6 tgw6.1 Physiological trait Source activity RG264 RM3
Osa06LNT0352600.1 6 nan Morphological trait Root RM4447 RM5509
Osa06LNT0352600.1 6 qLDLJ-6-1,2,3 Physiological trait Source activity RM217 RM3
Osa06LNT0352600.1 6 ph6 Morphological trait Dwarf RZ667 RG653
Osa06LNT0352600.1 6 qGL-6 Morphological trait Seed R674 R2549
Osa06LNT0352600.1 6 prt6.1 Resistance or Tolerance Drought tolerance R2549 RG716
Osa06LNT0352600.1 6 gw6 Morphological trait Panicle/flower RG424 R2549
Osa06LNT0352600.1 6 RPLD4 Physiological trait Eating quality RG424 RG172
Osa06LNT0352600.1 6 nan Physiological trait Eating quality RM253 RM162
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