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

>Osa02LNT0157800.1

GTGGAATAGAACATTTCATAATAATGGAAATAGTTTCAACTTCTACATTAAATATGCATTTGGACATTACTTATTATGTAACTGTAACACAACATTGCTAAATGAAGAAAATGCGACATCAAACATAGCTTGAAAATCGTCACAAGATCAGTTCGGAATAAGTTTGCACAAATCCTACTACAAAATTTCCATCCATGCACAACAAATGCGCATGTGTATGACTACTGTCTCAAGATTGCGACGCACCATGATGGTATCCTACCATGTTTGGGGAGCTTAAGATTTTGAGAAACAGTTGGTAAGAATCTGGAGAATTTGGGAAACTCAGCTTCTGGCTTCTAGTTCAATTTCTGGATTCTACAACTATAACTTCTCAGAATCTGGATAAAAATTTGGACTGTTTTGGGGGGCTTCTAGCAACTGGAAATTCCAGGAGAAGTCATGGGCCTGTTTGGTACAACTCCAACTCCTAAATTTAGCTCCAGGAGTTGGGTCTGGAGTGGAGTTGTGGAGCTGCGTAAACCCAGCTCCACAACTCTAGTTCATTTTGTGAGAGAGTTCCACCCAGCTCCACTCCCAGTTTTGGTGGAGCTGAAACTGTTTGGCTGAGCTCTAGGAGGGGTGGAGCTGGAGCTGGAGCTGTGCCAAACAAGCCCTGCCAGAAACTCTCCCAAACACAATGCATCTCAACTTCTGCGATCCATCAGAGATATCATCGTGACCTGAAGATCAGTCATGTACAGGTGAACCATTTTATCCTTAGCCTGCATACTGTTCTTCAGTGCTGAGGTCTTCACTATTGCTGCATACTGTGTGCCCATGTCTGATGATTGTGATTCATCTAGCTCTGTTCCCATGGTTTCCCCATGTAGTCATGCCCCTTTGTGAGAAATATAAATGGAGCACAGAGGGTACCATGGATGTTACAACTCTTCCTCACAAACTTCAGAGTTCAGAATAAAGCTGGGGAATACCATGGTTATGTCCTTTAGGTATGGAAGAGTCATGTTCTTCAGCAAAGCCGGGTTTTTACTCGCAAACGTTTTCCATTCATCGGGGTCGATCTTCCCGTCATCGTTTAAGTCTGCTTGCTTGAACGTCTGATCCACGATTTGTTCTACAGCTTCTTCAGATAGGAATAGATCTGATTCATTCAGAAGAGCAAGCACCATTTCGTGCAACTCTTCACGTTCAATGCATCCAGTTCCTCTCAGGTCATACAACCTAAATGCAAAGGCAATCTTGTCTCCCAAAGGCGTTTCCGGGTGAAAAATGCTGAGGGATCGAACGAACTCCCCGAAATCGATAACACCGTTGCGCTTCAGATCAAAGAGATCAAATATCCGATTGGCGAAAAGGTTCTTCTTGTTGCTGTTCCTGAAGAGAGCTAGCTGGAACTCCTCCTTGTGAATGAGACCATCTCTGAATATGGAATGGCTTATCTTCTTGAACAGCTCAAAGAGGGCCTCCACTTCACTCACTGAAAATGTAGTCTCTTTGGCCAGAATAGCAGGATCCTCATGTTGTGCAGCTCTTTTGAACTGCTTTGATGATACACAGCCCATTTTATACAAACCACGCCCTTAATTTCCTGTAGTTACAAACTTTCACTGCATAAAGTGATAGATGGAACCTGGGAAACAAATACAAATTCAGATCTTGTTTTCAGTACTGAAGTTCAACAAGAGGATGACTATCTAGTAGCTACAGAGACAGCTCTGTACCTACTGTCTTTCAAGCTTAATGCAGAATTGCAGATACAATGGACAGAGG

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.276844
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa02LNT0157800.1 2 11057238 A G
Osa02LNT0157800.1 2 11057281 A G
Osa02LNT0157800.1 2 11057491 C T
Osa02LNT0157800.1 2 11057702 C T
Osa02LNT0157800.1 2 11058918 T C
Osa02LNT0157800.1 2 11059001 A T
Osa02LNT0157800.1 2 11059012 C T
Osa02LNT0157800.1 2 11059317 T G
Osa02LNT0157800.1 2 11060100 T C
Osa02LNT0157800.1 2 11060109 G A
Osa02LNT0157800.1 2 11057230 T C
Osa02LNT0157800.1 2 11058668 T G
Osa02LNT0157800.1 2 11058096 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
Osa02LNT0157800.1 osa-miR5823 Cleavage 4.5 20.768 1 24
Osa02LNT0157800.1 osa-miR169f.2 Cleavage 4.0 14.892 1 21
Osa02LNT0157800.1 osa-miR444a-3p.2 Cleavage 4.5 20.992 1 21
Osa02LNT0157800.1 osa-miR444d.2 Cleavage 4.5 20.992 1 21
Osa02LNT0157800.1 osa-miR444e Cleavage 4.5 20.992 1 21
Osa02LNT0157800.1 osa-miR1860-3p Cleavage 4.5 22.83 1 22
Osa02LNT0157800.1 osa-miR1865-3p Cleavage 5.0 17.241 1 24
Osa02LNT0157800.1 osa-miR2094-3p Cleavage 4.5 20.629 1 22
Osa02LNT0157800.1 osa-miR1864 Translation 4.5 21.938 1 24
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa02LNT0157800.1 2 tgw2 Morphological trait Seed RM290 RM550
Osa02LNT0157800.1 2 qLRS-2 Resistance or Tolerance Drought tolerance RM322 RM324
Osa02LNT0157800.1 2 nan Resistance or Tolerance Drought tolerance RG83 RG171
Osa02LNT0157800.1 2 qPH-2 Morphological trait Dwarf RG324 RG83
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