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

>Osa01LNT0046700.1

TTTACTTGTAACAATGGCTTTGAAGATTTTATTACGACATTTTCTTTTGGAAAACTCATCCAGGGACATTGAAGTGAAAGAGCCAAGATATAACAAAAGCAAACACCATGCAAGCAAGAAGGAAGTTGAGAAACCGGTGGCCTTGCCAAAACCTCCGAGGTTCACTGGCAGGCATTTGCGAAGCCGCGGTGTTACTTGATTCATTCCACTGCTCGATGAACTCGGCATCACCGATACCTACCACATTGCATGCAGTTGAGCCACAGATTTCGCAGATCCTGTTTCCCCTGATCTTGAACCAGGTCTCGGCGCACTGCTTATGGGCGCAGGAGAGGTCGTCCTTGCAGGAGCAGCCGAGGAACATGCCGGAGCCGGACTCGGCGGCGGCGCTCTCGAGGCCGAGGTGGCAGATGCGGCAATTCCTCTCGGCCGTGTCCGGGCTGGCCTTGCTGATCTCGGCCAGCCCGGCCTCGAGGTCCACGTCGCCCAGCGAGCACTCCGACACGCACGACTTCCTCCTGCCGCCGCCGTCCGCGTCCGCGTCCCCGGCGCCGGAGCGGACGGACGCGCACGTCGAGATGAAGTCCTCGAGGGCAACGGAGCCCTGGCGCGAGTGCGACCGCCATGAGTGGTCCTCCGCGTCGGAGAAGCGCTGGCTCCCCTTATCCTCATCCGAGCTCTCCTCCGCAAGCCCGCCTCCTCCTCCTCCGCCGCCGCCGACGTGGCGGGCCGGCTCCGCGCTAGAATCCGCGGCGGCGGCGGGAGCGATCGTCAACGCCTGCTCGCCGTCGTTCACCATTGCTCACGCCAAACAAACTCTTGCAGTTACAGGTTACTCCAAAGCTGACGGTGTGCCACCACGCAAGCAATGCGGCCGATCACTGGGAGCAACCACCCAAGAAAAATCCAAGCTGCCAGTAGATTCTAAGCTCTAAAAAAATAACGAATTGAAAATATACTGCTACCGACGAGGCATCAGGTGCCTAAAAAAGATTGGATTTTAAAGCTGTTTCTTGATCCACAGTGGCGCAGAGAGAGAAGCGAGAAAGCGAGGAAGAGTCGCGTAGCTGGGAAGAATCGATTGAACAAGGAGTAGGCGAAAGAGAGAAGGGGAAAAAAGAAAAGAGAAAACTTGCGGAGTTGTGGTGCTTTGTCGGGGACGAAGGGGAAGAGAAGAG

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.891301
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa01LNT0046700.1 1 36597898 A G
Osa01LNT0046700.1 1 36598393 T C
Osa01LNT0046700.1 1 36598657 A G
Osa01LNT0046700.1 1 36599422 A G
Osa01LNT0046700.1 1 36599602 G C
Osa01LNT0046700.1 1 36598972 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
Osa01LNT0046700.1 osa-miR156c-3p Cleavage 4.0 16.642 1 22
Osa01LNT0046700.1 osa-miR156f-3p Cleavage 4.5 16.642 1 22
Osa01LNT0046700.1 osa-miR156g-3p Cleavage 4.0 16.642 1 22
Osa01LNT0046700.1 osa-miR156h-3p Cleavage 4.5 16.642 1 22
Osa01LNT0046700.1 osa-miR156j-3p Cleavage 4.0 16.642 1 22
Osa01LNT0046700.1 osa-miR156l-3p Cleavage 4.5 16.642 1 22
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa01LNT0046700.1 1 nan Physiological trait Source activity RG532 RM472
Osa01LNT0046700.1 1 nan Resistance or Tolerance Drought tolerance RG690 RG810
Osa01LNT0046700.1 1 yd1 Morphological trait Seed C2340 C86
Osa01LNT0046700.1 1 yd1b Morphological trait Seed C547 C2340
Osa01LNT0046700.1 1 qNSB1-1 Morphological trait Panicle/flower C86 C2340
Osa01LNT0046700.1 1 qSSBp1-1 Morphological trait Panicle/flower C86 C2340
Osa01LNT0046700.1 1 qChll1a Morphological trait Culm/leaf C86 C813
Osa01LNT0046700.1 1 qH2O21 Others Others C86 C813
Osa01LNT0046700.1 1 An10 Morphological trait Panicle/flower nan nan
Osa01LNT0046700.1 1 qLVBTS1-1 Morphological trait Panicle/flower C2340 C86
Osa01LNT0046700.1 1 sf1.1 Physiological trait Sterility RM212 RM315
Osa01LNT0046700.1 1 brt1d Resistance or Tolerance Drought tolerance C742 C904
Osa01LNT0046700.1 1 nan Resistance or Tolerance Insect resistance RM543 RM472
Osa01LNT0046700.1 1 dth1.1 Physiological trait Flowering RG541 RG109
Osa01LNT0046700.1 1 sf1 Physiological trait Source activity RG374 RG394
Osa01LNT0046700.1 1 ng1 Morphological trait Panicle/flower RG374 RG394
Osa01LNT0046700.1 1 ng1 Morphological trait Seed RG374 RG394
Osa01LNT0046700.1 1 sf1 Morphological trait Seed RG374 RG394
Osa01LNT0046700.1 1 nan Physiological trait Source activity RG374 RG690
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