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

>Osa07LNT0389000.1

TGTGTAGGCAACAGCTCCAGGGTTTCAGCTGAACTGAAGCCAAACTGCCAAAGATGTGAAGCTAAGGTGGTGAATCATGAGAGCTTCCAATCCATGTTTTTCCAAACTTTCCTATGCAACCAACACAATCATATCATATGAACATTGCACGGTGGGACAGCAAGCTGGGTACATTCCATTGTTCCAAAGGTGAATTATTTGAACAATTCCGTAACAACTGTGTTACCTAAATACAGAAGCGCCTTCTTCGACTTAGAACCAGTCAGGACTTTTATTTGTAAGAACTGTTCAATAGAAACAAGTGACTGACAGCATCAGCTCTTGGTTATTTTGTCCGGTTATTCATGAAAGATTGGTTGGGAATTTGTGGGATGATAGCATGGGTTTTTCTTTGTTATGGCCTACAAGGGTCCAGGGAATGTGCCATTCTCACGTTGTTCGTTCCAACGCTCAATCCATTCACTTGGGCAAAGTGATCGATAATATTTTGCAAATTTTTCACACTCAGGAGCACCCTCTCCTTTTGCAGCTACACACCTATGATATTCAATATAGCGTGTGAAGCAATGCCTTGTTTGATTTGTTGTTGGGAAACGAAAATCAGCGGGAGCCGTCTCAATCTTAATTTCTGGCTTCTCATCAATTGTTTCCTCTTCAGCCTCATTGCTTTCCTCTGTAGCAGCATTGCTCCCCTCTTCTTCTGGCTTCTCAGAGGATGCTGTCATCTCGGGAGTTTCACTTTTGTCCTCAACAACAGAAGTGGTGTCCTGAGCTGCTGGTGTTTCAGCATCTTTCTCAGGAACAACTTCAGCCACACTGTTATCAGAAGATTTTTCAGAGGATGAATTTTCCACAGGGACCTCGTGGGGTGGGAGTGTGTGTTCCTCGGCGGCGAGCGTCGGGGCCTTGCCTTCTCCCGCCGCCATGGGCGCCTCGCGAGAGAGCTTCCGGAAGCGAGCTGAGCCCCGTGGAAAGAGAGAGAAGCGTACGCGTC

Coding Potentia
Explanation CPC Score
noncoding -1.04801
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa07LNT0389000.1 7 25692614 G A
Osa07LNT0389000.1 7 25693079 T G
Osa07LNT0389000.1 7 25693087 A T
Osa07LNT0389000.1 7 25693735 A G
Osa07LNT0389000.1 7 25693771 A G
Osa07LNT0389000.1 7 25694195 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
Osa07LNT0389000.1 osa-miR160a-5p Cleavage 5.0 20.782 1 21
Osa07LNT0389000.1 osa-miR160b-5p Cleavage 5.0 20.782 1 21
Osa07LNT0389000.1 osa-miR160c-5p Cleavage 5.0 20.782 1 21
Osa07LNT0389000.1 osa-miR160d-5p Cleavage 5.0 20.782 1 21
Osa07LNT0389000.1 osa-miR160e-5p Cleavage 5.0 20.782 1 21
Osa07LNT0389000.1 osa-miR169i-5p.2 Cleavage 5.0 21.586 1 22
Osa07LNT0389000.1 osa-miR1428a-5p Cleavage 5.0 24.74 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa07LNT0389000.1 7 qLVG7-2 Resistance or Tolerance Cold tolerance RM336 RM118
Osa07LNT0389000.1 7 QRl7 Morphological trait Culm/leaf CDO497 CDO385
Osa07LNT0389000.1 7 nan Physiological trait Eating quality R1245 R1789
Osa07LNT0389000.1 7 nan Physiological trait Eating quality R1245 RM234
Osa07LNT0389000.1 7 nan Resistance or Tolerance Other soil stress tolerance R1245 R1789
Osa07LNT0389000.1 7 qSDS-7-2 Physiological trait Germination/dormancy RM320 RM234
Osa07LNT0389000.1 7 qCIVG7-2 Resistance or Tolerance Cold tolerance RM336 RM118
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