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

>Osa01LNT0058500.1

CTGGCCGCCGCCTCCTCTCCCTCTCCCTCTCCCCACCGGCGCCTCTCCCCCTCCCCCCAGCCGGCCGACTCCCCCGCCACCGGCGCCGTCTCTCCCACTACTGGCGTCGTCCCTCCCTTCTCGCCGGCACGGCGCGGCGACGGCGGGGTGCGGTGGGGTGTGGCGGCGGCGCCGCCTTCCCCCACGGCGAGCGGCGGCGGCGCCCTCCTCCCCACGAGCGGCGGCGGCGCCGCCTCCCCCGCACCGAGCAGCGGCGGCGGTGCGCCCTCCCCCAGCGATCGGCGGCGCGCCCTCCCCCCAGCGATCGGCGGCGGCGGCGCCGCCCTCCCCACAGCGCGACGCCTCCCACTCTCTCCACTTCTCCCCCTTTCTCTCTGTGCGGCGGCGGCGGGAGGGCCGGCGACGCCCTCCCCTCCGCTAGATCGAGGGGAGGGGAGGTGCAGCGGTGGTGGTCCCGGCGGAGCGGGAGGGGCGGCGGCCCGGACGGCGTGGAGGCGGGCGTCGGTGGCCACCGTTTTTTTTTCAATTTTTTTCCATGGCTATTGCTAACCGAATCGGATTGTGTGTGGACGAAAATTAGATGTGATGACCGGAAAAATACGAATATTTATATTAGTTATAGATTTGTTTCGATCTTGGAGTCGTTTTCTTCAACGTGTGGTTCCTCCGCTGTGCTGCTTCCTTTTCCTCCCATATAATATCTCTTTGCACTAATTTTGGTTTTTCTGTATTATCTGGATATTGAATTTGGACGAACCGGGTATATTTATGACATGGACAATGAAAGCCACATTCATAAGAAAAAATGACATCACATGGGATGAAACCATATTCGTGATAGACCATACCCAATACATGCCACATCCACATGCCTTTTTTTACCCCCTTATCAACGGGTTATATCTTGTATTTAAATCCTCAAAATTTTTTCTATTCGTG

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.745477
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa01LNT0058500.1 1 43242912 A G
Osa01LNT0058500.1 1 43242927 G 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
Osa01LNT0058500.1 osa-miR416 Cleavage 4.5 15.096 1 21
Osa01LNT0058500.1 osa-miR1858a Translation 3.5 8.804 1 21
Osa01LNT0058500.1 osa-miR1858a Translation 4.5 10.895 1 21
Osa01LNT0058500.1 osa-miR1858b Translation 3.5 8.804 1 21
Osa01LNT0058500.1 osa-miR1858b Translation 4.5 10.895 1 21
Osa01LNT0058500.1 osa-miR1846a-5p Cleavage 5.0 10.895 1 20
Osa01LNT0058500.1 osa-miR1846b-5p Cleavage 5.0 10.895 1 20
Osa01LNT0058500.1 osa-miR1846c-5p Cleavage 5.0 10.895 1 20
Osa01LNT0058500.1 osa-miR2055 Translation 4.5 12.49 1 21
Osa01LNT0058500.1 osa-miR2931 Translation 4.0 15.83 1 20
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa01LNT0058500.1 1 qRNd1 Resistance or Tolerance Other soil stress tolerance RG236 C86
Osa01LNT0058500.1 1 nan Morphological trait Root RM1387 RM1067
Osa01LNT0058500.1 1 ph1 Morphological trait Dwarf RG236 C547
Osa01LNT0058500.1 1 nan Resistance or Tolerance Other soil stress tolerance RG810 RG331
Osa01LNT0058500.1 1 nan Resistance or Tolerance Other soil stress tolerance RG810 RG331
Osa01LNT0058500.1 1 nan Resistance or Tolerance Other soil stress tolerance RG810 RG331
Osa01LNT0058500.1 1 fla1 Morphological trait Culm/leaf RG810 RG331
Osa01LNT0058500.1 1 nan Resistance or Tolerance Other disease resistance RG109 RG236
Osa01LNT0058500.1 1 nan Resistance or Tolerance Drought tolerance RZ14 R117
Osa01LNT0058500.1 1 qHID-1 Morphological trait Seed RG810 RG331
Osa01LNT0058500.1 1 qTGW-1 Morphological trait Seed RG810 RG331
Osa01LNT0058500.1 1 nan Physiological trait Eating quality RG331 RG810
Osa01LNT0058500.1 1 nan Resistance or Tolerance Drought tolerance RZ14 R117
Osa01LNT0058500.1 1 qPH1-1 Morphological trait Shoot/Seedling C86 RG236
Osa01LNT0058500.1 1 qBMS1-2 Physiological trait Source activity RZ801 RG331
Osa01LNT0058500.1 1 qHID1-2 Morphological trait Seed RZ801 RG331
Osa01LNT0058500.1 1 qTGW1-3 Morphological trait Seed RZ801 RG331
Osa01LNT0058500.1 1 rrw1b Resistance or Tolerance Other soil stress tolerance C86 RG236
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