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

>Osa02LNT0183300.2

GGCAGGAGAAGCATTTGATGGTAGTGCAATATAATGCTGTACAAGTTGCTTGAAAATAACATGCTCAAGTCTTAATTTCTCAGTAATTAACTTTCTTCATAGTGGCCACACTGGTACTCACTCCCGTTACTCCACTACTTAGCTTCTCACGTTTTCATGAACCACACACTTCATCAGCATCTGAGGGCATCAGGGCAGGCCATCCTCAAGTTTGCAAATGATGGAAAATCCATGCACATCCTTTTGGCACGATAAGGACTTCGCTGATTGCATTGGTCCAAGATACAGCGCAGTAATTTCGCTGCATCTTATGACAACCACAAACTCAGAAAACAACACCCAACACATACTGAACCTGTCTGAGTATCTAACATCCATATTTCAGAGGGGGGCAAACTTACTCGGTATATTTATGCATTATGTGGCAACTTGGAGGTTAAAAACAGTTGGAGACTCGAAAGGAAATCTAAAAACTGTTAGAAAATGGTTTTCTAAATAACAGATGCCAATAGCGTAAGCAGAATGGCTGTAAAGCAACAAAGCCAGAACAACAAGGATACATAGCAAACCAAGTGATATTAACAGTTAAAAGTACCGTTGTTGCTCAATTGACCAGTAAACTCGACAGACAATTGTAAACATAAAAAATATATACCTTAAGAAACAAACCGTCTACGCATAAAAATTTCACTGCTGCTGATGGTATGATATTCATGTTACTGAATCATGGGGGAATATGAAGTGATATTTTCAGGAGTACTAGCTTATGTACTCCTTTATGAATTTCATTTCCATGTCATCATTTATTTAATGTTTATTCTTTCTATATGTTAAGGAAAAGGTCAAAACAAGCATCCACACCTACATGGTCTCAAAGAACTGTAGTACATAGCATGCCCCCACAGAGATCCTTCTCTTTCCCTCTATTTTGGGTTCAAAAATGCCATCGCTCATGAAAAATACAAAAAGATACCAAGCACCAAAAAGGGATAAATCTGATTTGCCCTGAGTTTACATTGGAGACTGTACTCATCATTACTACAGTATAACTGTTATATCAACAAAATGGTTGAAAACAAAGTCCTGATTAAAGATACAATTATACATAAGTACCTCCTATGTCTATGCGTAAGTTTTGTGCCAACAAAGTGATCAGCAGTTATGCATTATGCACTCCAATGGCCAGTCCATAATACAGATCAGCAAGGTTATGTCTAGATTTTTTTTTTCCTTAGAACACAGGGAAGTTCAGTGTGCAAATTTTTCAGCTAGGAGTTTAGGACCAAAGGTTTAAAAGTCTAATGATGATGAAACAACCAAGCTACTGGAGCACTAGACAAAAACAAGTGTCAGCTGAATTGACAAGTTGGTCCAAATTAATCTAGAATAATAAGTACTGAAGACTGAACAACTATAACACTCTGATGCACTTGTGCTACGCATATCCCACATCTTGAGATATTGGAACTATGTGAATCAGATAGCATTTTACCTCATCTCAAATGCATATGTGATTGAGTTGTGTGTGATTTTTGGCAACATACTGCGTTTCTAGATTAATCATATGTATATAGTTCAAGGAAACTGACATGATTTTCTTTTTTTGCTGATAGATTTGGCAGAGGGAGGCAGCAAGCTTGAGGCAGCAACTGCACAACTTGCAAGAAAGCCACAAGTAATCATCTAATGATTTTGTGCCTTTCTTGCAAGTAATGCAGTTGTTGCCTCATGCTTGGTGCCACCATGTGCAATAACTCGAATCCGCCGCGGGTTCCAGCCATGGTGCGGCAAGGGTGTGGGCGACTGCGACTGCGACCGCGAGCGATGAAGCGACGGGTGGGAGGCCGGCGCACTTTAAAACGGGGGCGGAGAAGGGTCTAGAAGGATCGAATCGATGTTTCCAGAATTCCAAGTGGGGGGTAGAAAAGGCAGGAAAATTGGCGCAGTGGAGTTCGGCTTTTTTGGCGAAGGGGACGAGAGGAGGGAGGGAACGGAGCGCGG

Coding Potentia
Explanation CPC Score
noncoding -1.3141
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa02LNT0183300.2 2 30461154 A G
Osa02LNT0183300.2 2 30460310 A T
Osa02LNT0183300.2 2 30460879 A C
Osa02LNT0183300.2 2 30459811 G A
Osa02LNT0183300.2 2 30461730 T G
Osa02LNT0183300.2 2 30462012 A T
Osa02LNT0183300.2 2 30463368 G A
Osa02LNT0183300.2 2 30463470 T A
Osa02LNT0183300.2 2 30463991 A C
Osa02LNT0183300.2 2 30463021 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
Osa02LNT0183300.2 osa-miR5788 Translation 4.5 18.545 1 21
Osa02LNT0183300.2 osa-miR166a-5p Cleavage 3.5 18.058 1 21
Osa02LNT0183300.2 osa-miR166c-5p Cleavage 5.0 18.058 1 20
Osa02LNT0183300.2 osa-miR166e-5p Cleavage 3.5 18.058 1 21
Osa02LNT0183300.2 osa-miR529a Cleavage 3.5 17.674 1 20
Osa02LNT0183300.2 osa-miR1424 Translation 5.0 16.688 1 21
Osa02LNT0183300.2 osa-miR5081 Translation 4.5 13.547 1 22
Osa02LNT0183300.2 osa-miR5340 Translation 4.5 22.026 1 23
Osa02LNT0183300.2 osa-miR5490 Cleavage 3.5 8.635 1 21
Osa02LNT0183300.2 osa-miR5494 Translation 5.0 9.32 1 21
Osa02LNT0183300.2 osa-miR2864.1 Cleavage 4.5 21.224 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa02LNT0183300.2 2 qLTSPS2 Physiological trait Sterility RM1385 RM240
Osa02LNT0183300.2 2 qLTSPS2 Physiological trait Sterility RM1385 RM240
Osa02LNT0183300.2 2 qSB-2 Resistance or Tolerance Sheath blight resistance G45 RZ273
Osa02LNT0183300.2 2 qCHR-2 Others Others RM263 RG520
Osa02LNT0183300.2 2 nan Physiological trait Eating quality C621 C370
Osa02LNT0183300.2 2 AsS Resistance or Tolerance Other soil stress tolerance RM318 RM450
Osa02LNT0183300.2 2 qDLR2-1 Resistance or Tolerance Other soil stress tolerance RM525 RM406
Osa02LNT0183300.2 2 qDLR2-1 Resistance or Tolerance Other soil stress tolerance RM525 RM406
Osa02LNT0183300.2 2 qER-2a Physiological trait Eating quality nan nan
Osa02LNT0183300.2 2 qSDW2 Resistance or Tolerance Cold tolerance RM263 RM6
Osa02LNT0183300.2 2 Hd7 Physiological trait Flowering R3393 R2511
Osa02LNT0183300.2 2 nan Morphological trait Panicle/flower RG139 CDO686
Osa02LNT0183300.2 2 qGRH-2 Resistance or Tolerance Insect resistance C621 C601
Osa02LNT0183300.2 2 nan Morphological trait Seed C747 C1445
Osa02LNT0183300.2 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
Osa02LNT0183300.2 osa-MIR444d 100.0 143 1 143 2.15e-71 265
GWAS
Transcript ID Chromosome Locus Trait Value Plus Minus