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

>Osa02LNT0191800.1

GGCTTTAATTTGACACATCCTATACGGAGGGCTTTGCCTCCTTTCAGAAATTTTAAAAATATATATTACTCCATAATTGTTCAGCACAGATACTACTACTCTCTCACTCAATCTATCTGCCATCTTTCAGTAAAAGAAAAGGAAAGAAATGCAATTGCTATTTCCTGATTCGAATCCCAGGTACATCCTTAAGGCCCATCTTCAGAGCAGTTTTCCTGTACAGTGCTGGAGGCTTTTCCAAACCGATGGATTTACAGAACCTGTTCGCTAGGTCAACAAGCATGGTCTTGTCTCTTCCAACATCACCTATTGAATTGTAGTAGCCAAGCCATGCGTGATATGCTGCCTCCTTGATGCTCATATCAACTATCTTTATTGAACCATCAACCTTTCGTTTCATCTCCTCGTCAATGTTTGGTGTTTGAGACTTCTGCACCGGGAGATCATGTATCTCATTTAAGAAATACTCTTCCCATGGCGCAAGCAAAAGAATCCCTTTACCAGATTTACCTTCTCTTCCGGTCCTTCCAAGTCGATGGATGTAGTGCTCTCTATCTGAAGGAACACCAACCTGAATGACTAAGGTGACACCTGGATAATTCACTCCACGTGTTGAAACATCTGAGGTCACCAGAATCAAGCGACTAGAATCTCGAAATTCTTCTGATATCCGAGTTCTATAGAGCTGAGGCTTTCTTGAATGGATTTCTCGGACATTTAGCTTCAAATCTCGAAGCATTATATACATAAATTCAGTCACCATGGCAGTTGTGCAGAAAACAATCACCTTATAGTCCACTTCCTGATCAATATGTTCTCGGAGAAGGCGATAAACCATATGAAAATGCAGCTCATGTGGCATAACGAGATACAACTGCTCCACCTTAGTAGGAGTTTCAACAGCTCCCAAGCCCACTGTATCAACAAAAACATGATCCCTTTTTAAAACTAGCTGTGAAACCCTTCGAACCTCCTTTGGGATTGTAGCAGAAAATAGTAGTGTCTGTCTTTGACGTGGCAAACTATCAACAATCTTTTCAATGTCTGTACGGAAACCCAAATCTAGCAAATGATCAGCTTCATCCAATACAAGCAACTTCAATCCCATCAAGCGAACAGAGAATGAAGATTTGTTCTCAATGTGATCGAGCAGTCTACCAGGTGTAGCAACTAAAATCTGGCATGGATCAGATTCTAAACGTCTTTGATCTAGCTTGAATCTAGTGCCACCAATAAGAGATTGAACACCAATTCCTTGATGGTACTTCAACAGAACATTTGCCTCAGCTGTGAGCTGGATGGCAAGCTCTCTTGTAGGGCAAAGGATAAGCGAAAATATTGGAGACACTCGATGATTTGTATGGCTCTTCATAGCATTCAAGACAGAAAAGCTGCACTTTTGCCAGTTCCAGTTTTAGCCTTGACAAGAACATCTTTGCCTTCAAGACACATAGGAAGTGCTGTTTCCTGCACAACGGTAGTCTGTACATATCCAGCATCAGTGAGTGCTTTTACTGTTAGGGGAGAGATACCACATTCCTCAAATCTTTTATTGGTAAACAAAGATTCGCCCCTCGACTCGTAACGCCTCCGCTCAGCACCCAACACTTCCCTGTTCTTTATCTCCTCTCGCAGCTCTCGGAAGCTACCAGCGAGATCGTTGTTTTCTTCCTCATAGGACTTGAGCGCTCTCCTCTCCTTCTTCATATCACAGTTCCTCAAAGCAGCACTGCTCCATTTCTTCCTGATGGCACTTCTCGCCTCCAATTCATCGTATCCTGATTCCTCCTCACTGGATGCTCCAAACCTCGCAAACCTCATATCCTTCTTCGCAGTTGATATATCCTCATCATCCTCATCTGAGGAGTCTGGCCTCAATTTCCTGCCAAATCGCCCTGCTGCGAACGAGTAGAACCTCTCTCCATTCAACTGCGAGGGAGCAATCCGAGCACTGGCAAGACCTCTAGCAATCAGCGGCACCATCGATGTACCACTGGACTCCTGATGCGCCTGGAACAGAGGCATCACTGAGTAGGATCTCTTGGGACCGAAGAAACAGAAGGATGCCTCCTTTGTTCGCGAAGGAATGGCGGAAGACGAGCTCCATTGCCACCACCAGGGCGCGGCCGTCTGGAAATCCCTCCTAGGATTGAACGCAGCCAGACGCGGCTCCTTCCCACCCCTCGGTAGCTCCTGCTTTGTAGAGTCCAACTTACGGCGGTCGCCGCCATTCCCGCCAACGGAGACGATCCTCCTCGGCGGCCGCGGCCGGTCGGCGCGGTGGATGGGCCCGTCGTCTTCGTTCCAGAGATCCTCGGCGCCGGGCAAGAGGAAGCGGTCGGCGAGGGCGCGGATGTGGGCGCGCGAGGAGGTGGGCCCGTCGCCGTCGTCGGGAGGGGAGGCGCCGGCGGCGGGCAGGCGGGAGGCGCGGATCTCGGAGCGGAGGCGGGCGAGGTAGAGCTGCTTCTCGTGGCGGAGGAGCCCCCGCTCCTTGTGCCTCGCGAGCTTCTCGTGCATCCGCTTGTGCTGCCACTTCGACAGCCCGCCCGGGAACGTCCTCGGCCCGCCCCCCATCCCACCGGCGTCCTCGTCGGCGGCGGCGGCGAGAAGCAGTAGGGTTTATCAATCAATTATCA

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.911716
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa02LNT0191800.1 2 35502191 A C
Osa02LNT0191800.1 2 35502589 C T
Osa02LNT0191800.1 2 35504031 C T
Osa02LNT0191800.1 2 35504321 G T
Osa02LNT0191800.1 2 35504599 A T
Osa02LNT0191800.1 2 35505366 G A
Osa02LNT0191800.1 2 35505661 A G
Osa02LNT0191800.1 2 35506177 A G
Osa02LNT0191800.1 2 35506179 C A
Osa02LNT0191800.1 2 35503000 T C
Osa02LNT0191800.1 2 35506235 A G
Osa02LNT0191800.1 2 35506570 T 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
Osa02LNT0191800.1 osa-miR5542 Translation 4.0 10.868 1 21
Osa02LNT0191800.1 osa-miR5807 Cleavage 4.5 15.07 1 24
Osa02LNT0191800.1 osa-miR5822 Translation 5.0 19.702 1 21
Osa02LNT0191800.1 osa-miR5823 Translation 3.5 19.788 1 24
Osa02LNT0191800.1 osa-miR167a-3p Translation 5.0 19.807 1 22
Osa02LNT0191800.1 osa-miR166k-5p Cleavage 5.0 15.089 1 21
Osa02LNT0191800.1 osa-miR2928 Translation 4.5 20.435 1 20
Osa02LNT0191800.1 osa-miR5150-3p Translation 5.0 12.981 1 24
Osa02LNT0191800.1 osa-miR1876 Cleavage 5.0 14.556 1 24
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa02LNT0191800.1 2 ss2 Physiological trait Source activity RM240 RM213
Osa02LNT0191800.1 2 nan Morphological trait Seed C747 C1445
Osa02LNT0191800.1 2 gn2.1 Morphological trait Panicle/flower RM250 RM208
Osa02LNT0191800.1 2 gw2.1 Morphological trait Seed RM250 RM208
Osa02LNT0191800.1 2 pl2.1 Morphological trait Panicle/flower RM250 RM208
Osa02LNT0191800.1 2 sn2.1 Morphological trait Panicle/flower RM250 RM208
Osa02LNT0191800.1 2 qCHR-2 Others Others RM263 RG520
Osa02LNT0191800.1 2 qDLR2-1 Resistance or Tolerance Other soil stress tolerance RM525 RM406
Osa02LNT0191800.1 2 qDLR2-1 Resistance or Tolerance Other soil stress tolerance RM525 RM406
Osa02LNT0191800.1 2 Hd7 Physiological trait Flowering R3393 R2511
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