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

>Osa02LNT0188800.1

GGAGAAATTTCTTCAGGTAGCAGAGGATTAACTGGGGATCTACATATATGTACAAGCTGGCTGAAATACAGAGGAGCGAGGCAGGCTCACTCGACGACTACAAAAGGTATATACATGTCTCGGTATAGTATCGTTCAGGTCGTTAAATTAAATGCAAGGAATCGACCGCGTGGAGCAGGCAGAAACAGAATCGTATGGCTCTCTTCTTCGGCTTCGGCAAGGGCAAGGCAATCGGCGATTGCCTGGATGAACACAGCTGCTTCGCGCGTGCCGTGGGCCCGTGGAGCAGAGACGAAGACAATGCTTGCTGTTGAAAGGTCTTCAGGCGGCACCTTCGCACACGTCCCCACGGCACAACGGGCAGACCCTGTGTACTTCTTTGAGCCACTTGTCAACACACAGCAAGTGAAACTCGTGTTTGCACGGGAGGCTTCTTATCTGATCTCCATCCTCATATTCAGTTAAGCAGATGTGACACTGTTCCATGTCATCACTGCATTGGGCTGTCTGCTTTTTGTAGCTCTTACATGGTAATGAATTAACCACAGATTCTGGAGCCTGGGCAGAGACCATGGAAAGCGAAAGTGATGCAGGTTGCCGGTGAATTTCATCCAATACCTCAAATAATGCCTCGGTTAACATGACAATTCTTGATATACTTGCACGGGCACTAGATTCTTCAGCAATCAAGAAGGAATCACAGGTGCATCTGCCAATTTGGTGGATCCCCAAAGGACAAGCAACGGTACTTTGGTCAGTACCGCTATCAAAAACAGCACGCCGATGCTCCCTAATTCTGATTGAACCATGGCGTCTCCGATGAAAGAACCGTGCCTCCTCAATCTCATCCGCAAAAAGTTCATCACCAAGGTCTAGCCATCTGCTGTAAAATCCCAGATCATCGGTATCAGAATCTAAATATCCTCTTGAACTACGTCTGGAAAATGTGTCCCACAGAACCCTTCTATGGCTCCTCCTCATTTCATTGCTGCTTGAATCTCTAACACGCGCTGGACCATCGTTTGAGAAAATGCTCATCATGTCATCATGTAATGTATTTCCACCAATCTCACCTTGTGTCCCACTAAATATGGGGACATCTTCTCTGCTAGGGACTGTATCTGGAAGTGATTCTCCAATTGTAGATGGTGCAGTTGAAGTAGCAGGCAACACAGATGTTAAGCTAGATTGAGAAGTATCTGATCTTTCACTTGACATAATAGTTGTGGATGAAGTCCCATGAGCAATCTCTCCAGCCTCCAAGTCAGCCATGATCCTTTCAGATGCCCTCTGTGAGGAGGAGAAACCAGATTCAGAAACGGGGCCACCAACTTCTGGAATGCAAACTGTGTCAGTCTCAGCATTGTTTGCTGCAGGTTCTAAAATATCTCGTCCAATATGACTGATTCCTTCTCTAGACGTTATCTCAGCATAAGCAACTTCATTACTGAAATTTCCCCTAGGCATGACTTCCTTTCCTGATGAACTCTGACGAACACTT

Coding Potentia
Explanation CPC Score
noncoding -1.12748
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa02LNT0188800.1 2 33991892 C T
Osa02LNT0188800.1 2 33991277 G T
Osa02LNT0188800.1 2 33991360 A G
Osa02LNT0188800.1 2 33992060 A G
Osa02LNT0188800.1 2 33992401 A G
Osa02LNT0188800.1 2 33992945 G A
Osa02LNT0188800.1 2 33994101 T C
Osa02LNT0188800.1 2 33994421 G A
Osa02LNT0188800.1 2 33995156 A G
Osa02LNT0188800.1 2 33993299 A C
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa02LNT0188800.1 osa-miR156j-3p Cleavage 4.0 19.127 1 22
Osa02LNT0188800.1 osa-miR413 Cleavage 4.0 20.478 1 21
Osa02LNT0188800.1 osa-miR1430 Translation 4.5 15.814 1 21
Osa02LNT0188800.1 osa-miR2918 Cleavage 4.5 20.474 1 21
Osa02LNT0188800.1 osa-miR171f-5p Cleavage 4.5 15.46 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa02LNT0188800.1 2 Hd7 Physiological trait Flowering R3393 R2511
Osa02LNT0188800.1 2 ss2 Physiological trait Source activity RM240 RM213
Osa02LNT0188800.1 2 nan Morphological trait Seed C747 C1445
Osa02LNT0188800.1 2 nan Morphological trait Shoot/Seedling RM250 RG256
Osa02LNT0188800.1 2 gn2.1 Morphological trait Panicle/flower RM250 RM208
Osa02LNT0188800.1 2 gw2.1 Morphological trait Seed RM250 RM208
Osa02LNT0188800.1 2 pl2.1 Morphological trait Panicle/flower RM250 RM208
Osa02LNT0188800.1 2 sn2.1 Morphological trait Panicle/flower RM250 RM208
Osa02LNT0188800.1 2 qCHR-2 Others Others RM263 RG520
Osa02LNT0188800.1 2 qDLR2-1 Resistance or Tolerance Other soil stress tolerance RM525 RM406
Osa02LNT0188800.1 2 qDLR2-1 Resistance or Tolerance Other soil stress tolerance RM525 RM406
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