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

>Osa02LNT0182000.1

GCACATTACTTTCTCGCCGAAACACAGAGAAAGCAGAATCAGTCAACATCATATTCCATAGACAAATTTCACGCACAAGTAAATGTCTGATATGATGATATATACAACACTTTGCTCCTCGTCCTCGTATAGCACTGGAATATCAATGATGGCGCATCTCTTTGTTCTGCATTTGAATCTTCAGGACATCTCCAGTAATTTCATTCTGCAACTGGCAGGCCATAATTAGAGCTTGGGCTTTAGTGTTACCACTGAAGTAGTCACGGACAGGCTCTAGAATGTTGTTTATTGCTTTCTCAAGAGCCATCTTAACATCAGCAGAATTGAGATAACCTCTTTCATAATCAACACTAAGTTCTTCCATGCTTACAAATGTCTTGGTACTACCATTCCATTCATTCTGGACTACCTCCAAGTTCCCAAACCAAGGTAGGATGATATATTTGATATACTCCAGACATGGGTTGTGTACCACTACTTTTGGAGGACAGAATGCCCTCTGTATTTTTGAATTTAAAGTGTGCTCCTCATCATGCATGAAGATAGTTCGTCCACGATCTCGCAAGTCCACATATTCAGGATCTTCTAGTAAATTAGGTAGAGCATCATGCAGCAAAATAGTTGGTTTGTTCACCCAGTTTATGTTTTCACAATAATCTCTAGTGAGCATGATAATATCTCGTTGATCCATGCTGAATAGCCATATGTTCGTCTTCTCGCATAATATAGAAGCAACCTGCATGCAAGGATAAATTATCTCAGCAGCAGGAAGTATTTGTGGCCCATGTTCTGCATTACTCCAAAAGATCCTTGCAATTCTTGTCATGGTATATCTTCTGGAGACATCCATGGCAACTGGCCAGTAATCAACTGCATGGAGATTCAATTCATCTGACAACCACACAAGCTCTACCCTGTCAAGGTCCATGCCAGCTGCTTTCCACATCTCAATATTGAGATAGCCAATGTTCCGTATTTTACTTAGGTTGTTGCCAATCTTATAATGACGCTGCAAAAACCAATCTGCCGTCACAATTTTGACTGCACAACCAGCTTTGACCATCCTGTTGACATAGATTGTCTTCATAATCCCCTGCTCTATGTCCATATTGGTGGATGGCTCAAACCAAACACAGCATGTAGGACTGGGCTTATTCTTCAGCAGGCCGAGGAGTTCATCCTCATAGATGCATTCATCTCCTATGCTCCTCAGTACTGCAAACTTCTCATCAGAATTAATCACCACGTTATCCTCGTTGATGTCGAAGGCAACATCATCTAAGTTATCCATTGTGGTTGATGCAGTGCTGTAGAAGTGGAAGATAAAGCTGGTGTGGTTATTGCGGCGGGGTCGGCGGCAAGAGATCGGCAAATATCAGCGCCGGCGGCCGTAGGTGGGTGGGCTAATGGTACTGCTGCGGCGGCGGTGTATTGAGGACTACCAAATATATATAGGGTAAGGGTACATATAAGATCCTATATATAGCTATAAGAGAGGGACCCGGAT

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.964564
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa02LNT0182000.1 2 29977118 G A
Osa02LNT0182000.1 2 29969381 A G
Osa02LNT0182000.1 2 29962825 A G
Osa02LNT0182000.1 2 29971690 G A
Osa02LNT0182000.1 2 29958951 C G
Osa02LNT0182000.1 2 29959654 G C
Osa02LNT0182000.1 2 29960545 C A
Osa02LNT0182000.1 2 29960926 A T
Osa02LNT0182000.1 2 29961006 G T
Osa02LNT0182000.1 2 29961262 T C
Osa02LNT0182000.1 2 29962048 A C
Osa02LNT0182000.1 2 29962926 T C
Osa02LNT0182000.1 2 29963035 A G
Osa02LNT0182000.1 2 29963501 A G
Osa02LNT0182000.1 2 29963705 T C
Osa02LNT0182000.1 2 29964128 A G
Osa02LNT0182000.1 2 29964314 A G
Osa02LNT0182000.1 2 29964363 C G
Osa02LNT0182000.1 2 29964683 A G
Osa02LNT0182000.1 2 29964701 T C
Osa02LNT0182000.1 2 29965071 C T
Osa02LNT0182000.1 2 29965735 T C
Osa02LNT0182000.1 2 29965979 A G
Osa02LNT0182000.1 2 29966092 A G
Osa02LNT0182000.1 2 29966131 A G
Osa02LNT0182000.1 2 29966219 A G
Osa02LNT0182000.1 2 29966285 C T
Osa02LNT0182000.1 2 29966417 A C
Osa02LNT0182000.1 2 29966477 A G
Osa02LNT0182000.1 2 29966716 C T
Osa02LNT0182000.1 2 29967000 A G
Osa02LNT0182000.1 2 29967275 A G
Osa02LNT0182000.1 2 29967349 A G
Osa02LNT0182000.1 2 29967544 A G
Osa02LNT0182000.1 2 29967556 T C
Osa02LNT0182000.1 2 29967599 A G
Osa02LNT0182000.1 2 29968292 T C
Osa02LNT0182000.1 2 29968697 A G
Osa02LNT0182000.1 2 29968706 A G
Osa02LNT0182000.1 2 29968793 A G
Osa02LNT0182000.1 2 29968813 T C
Osa02LNT0182000.1 2 29969356 A G
Osa02LNT0182000.1 2 29969456 C T
Osa02LNT0182000.1 2 29970120 A G
Osa02LNT0182000.1 2 29970140 T C
Osa02LNT0182000.1 2 29971212 A G
Osa02LNT0182000.1 2 29971446 A G
Osa02LNT0182000.1 2 29971829 A G
Osa02LNT0182000.1 2 29971872 A G
Osa02LNT0182000.1 2 29971995 C A
Osa02LNT0182000.1 2 29972009 A G
Osa02LNT0182000.1 2 29972180 T C
Osa02LNT0182000.1 2 29972502 A G
Osa02LNT0182000.1 2 29972717 A G
Osa02LNT0182000.1 2 29972903 A G
Osa02LNT0182000.1 2 29972934 T C
Osa02LNT0182000.1 2 29973385 A G
Osa02LNT0182000.1 2 29973625 T C
Osa02LNT0182000.1 2 29973718 C T
Osa02LNT0182000.1 2 29974090 A G
Osa02LNT0182000.1 2 29974115 T G
Osa02LNT0182000.1 2 29974405 G A
Osa02LNT0182000.1 2 29975075 A G
Osa02LNT0182000.1 2 29975429 T C
Osa02LNT0182000.1 2 29975692 T G
Osa02LNT0182000.1 2 29975739 C A
Osa02LNT0182000.1 2 29975772 T A
Osa02LNT0182000.1 2 29976068 A C
Osa02LNT0182000.1 2 29976143 A C
Osa02LNT0182000.1 2 29977058 A G
Osa02LNT0182000.1 2 29977141 A G
Osa02LNT0182000.1 2 29978308 T A
Osa02LNT0182000.1 2 29976567 G C
Osa02LNT0182000.1 2 29963121 T C
Osa02LNT0182000.1 2 29964204 C T
Osa02LNT0182000.1 2 29975967 A G
Osa02LNT0182000.1 2 29976478 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
Osa02LNT0182000.1 osa-miR6251 Translation 4.5 16.936 1 21
Osa02LNT0182000.1 osa-miR166d-5p Translation 4.0 13.557 1 21
Osa02LNT0182000.1 osa-miR166h-5p Cleavage 3.0 13.557 1 21
Osa02LNT0182000.1 osa-miR444b.1 Cleavage 4.0 14.128 1 21
Osa02LNT0182000.1 osa-miR444c.1 Cleavage 4.0 14.128 1 21
Osa02LNT0182000.1 osa-miR810b.1 Translation 5.0 13.689 1 21
Osa02LNT0182000.1 osa-miR1861c Translation 4.5 20.281 1 22
Osa02LNT0182000.1 osa-miR2867-3p Translation 5.0 17.47 1 20
Osa02LNT0182000.1 osa-miR1862f Cleavage 4.0 16.153 1 20
Osa02LNT0182000.1 osa-miR1862g Cleavage 4.0 16.153 1 20
Osa02LNT0182000.1 osa-miR5144-5p Cleavage 4.0 23.8 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa02LNT0182000.1 2 qSDW2 Resistance or Tolerance Cold tolerance RM263 RM6
Osa02LNT0182000.1 2 nan Morphological trait Panicle/flower RG139 CDO686
Osa02LNT0182000.1 2 Hd7 Physiological trait Flowering R3393 R2511
Osa02LNT0182000.1 2 qGRH-2 Resistance or Tolerance Insect resistance C621 C601
Osa02LNT0182000.1 2 nan Morphological trait Seed C747 C1445
Osa02LNT0182000.1 2 qPH-2 Morphological trait Dwarf RG324 RG83
Osa02LNT0182000.1 2 qLTSPS2 Physiological trait Sterility RM1385 RM240
Osa02LNT0182000.1 2 qLTSPS2 Physiological trait Sterility RM1385 RM240
Osa02LNT0182000.1 2 qSB-2 Resistance or Tolerance Sheath blight resistance G45 RZ273
Osa02LNT0182000.1 2 qCHR-2 Others Others RM263 RG520
Osa02LNT0182000.1 2 nan Physiological trait Eating quality C621 C370
Osa02LNT0182000.1 2 AsS Resistance or Tolerance Other soil stress tolerance RM318 RM450
Osa02LNT0182000.1 2 qDLR2-1 Resistance or Tolerance Other soil stress tolerance RM525 RM406
Osa02LNT0182000.1 2 qDLR2-1 Resistance or Tolerance Other soil stress tolerance RM525 RM406
Osa02LNT0182000.1 2 qER-2a Physiological trait Eating quality nan nan
Osa02LNT0182000.1 2 nan Physiological trait Eating quality nan nan
Osa02LNT0182000.1 2 nan Physiological trait Eating quality 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