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

>Osa07LNT0385100.1

TGGGAACAACCAGGCAGAACAAGAATGGCTTTAACAGCTAGCTTCACATTCCCCGACAGAGTTTCTACAAGATGTGTATAGTCCATCCTTCCCTCCATTGGGGATCTAGCAAAGAAAGGTGTAGGATCGACAGCGAAAACAAAGGCATCTAACACTAGCAGAGCAAGTGGGATCGGTAGCCAACTCCATCGATCCGCCGGCTGCTCGCCCGCCACAATACGGCAGGGGCAGCAGAACTTGCTTTAGAACAAAGATACAAGACCTGTACATATGTGGAGAGAACCTGCCTGAATTCTGCTGGAGAGGCAGGAAATACAGCCAGAGAAGAACAGAAGAATTACTTTGCGGATCGCTGTGATGCAGATGGCATTTAGCATTTGAATGCTACTAGCTCGGATTTGATGAGGAACCAGCAAAAGGAGTGGGCTGGTGTGAGGGCCACTGGACCCTTTCTGGAGGGCAGGGTGCTGGGGCAGGATGAGCGATGAATGTTGGTACATCGTGTCCTGGCATTAAAACTGAGACACCTTTGGCGTAAACAGGTATCTCGGGGGACGCGCCGCCGTCGAGCTTCCTGGCCGCCTCGAGATCCGAGCCGCCAGGGAAGGCGGCCTCGCCGGCGCCGCGGCGGTGGAGGAGTAGGCGGAGGCGAGAGAGGATCCCTCCCGGCGGCGGCGGGTGCGGGGGCGGCGGCCCCATCCCAGCGTGGCCGCGGTGGGCCGGGGAGCGGAGGAAGTGCTCGAGGATGGCCATGGCGAGGAACATGGAGACGAGGATGGCGGTGGCCACGAACCCGAACGACACCGCGCTGACGCCGCTGTCCAGCTGCCGCCACCGCATCTCCTCCTGCGCCGCCAGCGCCGCTGCCGACCCCACCACCACCGTCCCCGGCCCCGACCCCGTCCCCGCCGCCGGAGCCATCGCCGGCCCGCGCTCCATGCCCGCACCTCCCACCTCTCCTCCCTCCCCACCACCACCGATCCCACCTGCCTCACGCCAACCCACCGGCCGCCATTGCCGACCTCTCGGCGGCCCGCCCTCTCCTCCAACGCAGGCACCGCACTGCGCCGCGCCGCCGCCGCCGCCGCCGACGAGTGGAGGTGATGCAGGAGGAGTGGAGGAGACGAACTGGGAGGAGAGGAGGGGGTGGTCAGTGGTGGTGTCACGCCGTCACACGGCCTACGCGCGACTAGTAGG

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.790067
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa07LNT0385100.1 7 22681039 A G
Osa07LNT0385100.1 7 22682607 A G
Osa07LNT0385100.1 7 22682612 T C
Osa07LNT0385100.1 7 22683351 A T
Osa07LNT0385100.1 7 22683564 T C
Osa07LNT0385100.1 7 22683596 A G
Osa07LNT0385100.1 7 22683650 T C
Osa07LNT0385100.1 7 22683696 A G
Osa07LNT0385100.1 7 22683781 A G
Osa07LNT0385100.1 7 22684410 T C
Osa07LNT0385100.1 7 22685148 G A
Osa07LNT0385100.1 7 22685470 T G
Osa07LNT0385100.1 7 22684550 A C
Osa07LNT0385100.1 7 22681527 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
Osa07LNT0385100.1 osa-miR413 Cleavage 4.0 19.95 1 21
Osa07LNT0385100.1 osa-miR2864.1 Cleavage 3.5 23.875 1 21
Osa07LNT0385100.1 osa-miR5509 Cleavage 5.0 18.776 1 21
Osa07LNT0385100.1 osa-miR5517 Cleavage 4.5 17.695 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa07LNT0385100.1 7 qCIVG7-2 Resistance or Tolerance Cold tolerance RM336 RM118
Osa07LNT0385100.1 7 grb7-2 Morphological trait Seed RM505 RM336
Osa07LNT0385100.1 7 qLTG-7 Resistance or Tolerance Cold tolerance R1440 R1357
Osa07LNT0385100.1 7 qLVG7-2 Resistance or Tolerance Cold tolerance RM336 RM118
Osa07LNT0385100.1 7 Ph7a Morphological trait Dwarf RG650 C285
Osa07LNT0385100.1 7 qLTG-7 Physiological trait Germination/dormancy R1440 R1357
Osa07LNT0385100.1 7 QRl7 Morphological trait Culm/leaf CDO497 CDO385
Osa07LNT0385100.1 7 Ra7a Others Others RG650 C285
Osa07LNT0385100.1 7 qSDS-7-2 Physiological trait Germination/dormancy RM320 RM234
Osa07LNT0385100.1 7 nan Resistance or Tolerance Other soil stress tolerance C451 R1245
Osa07LNT0385100.1 7 sp2(t) Morphological trait Panicle/flower nan nan
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