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

>Osa02LNT0192000.1

CAGCAAACACAACACATTTATCGACTTTTTCTGCAAGTGCCCAGCCGGTCCAGTTACACATTTTCACGCTTGGATCAAGAATTACCAACTGGCATCTACTGGTGCGTTGCAGTGCAGTAGAAAAGTCAGTTTGGTTTGTGGTTTGGCTTGGCTGACCCGCTGCATCCACCGCTAGGAATTTGGAACTTCCTAGCAAACTCTTTATGTCCTTTTAATAACCCCCACATGACATTTCTCCTTCCAATAGGATAGACCCTTTTCATATCATCACCAGATTAACTATCACCACACTTTTCTAACTGACCTTTTTATTAGTATTACTACAACAAAACACGCTTGATGGCGATGCATGCCTCATGACTATTCTGCTACAGTATATGCTTCTCCTTTCTTTTTTTTTTGTTTTAAGACTGATGATAGTCAATCAACTCAGCTGCCACTACTGGGGTATTTGTTGTGCAGGAAGGTGAGTGGCTGCAACCTCATCTCTGACTGAAGCTGCAGCTCCGACACTTTCTTCAGCGACCGATACTGCAGCCGTATGCTTTCCCCGCTATCAACCGCCTTCACAAGATACCAGCCATTCAAGCACTGCGATGTGATGACTGCCTCCTTCCCAACAAATTTATCAGGCGTCCTTCTGTTTCCCATGATCAGGACCCTCTCGCCCACTACAAATGGATACTGCACACCCCTGGGTGATGTAGGGTTTTCAGCATCCAACACCAGCTCACCATTGCCTCTGCTACCTCCAGTGCTCTTCAGCACATCCATACGTTCGGTCACCTCTTTCCTGTGTTTGCGAAGAGCAGCATTATGAAAGAGTCTCCTATCATCTTCCATCTTCACCACTGTAGCTACTGCTCTTAAAGCGAGATTAGGAAACAGGGTGGCCGGATCAACTTCTCCATTGCAAATGGTGCATCTTGCCATTTCAATGACTTTCTTCAGCATGAGGCCACCGAAAGAGTGTCCACATAACAGAACCATAGCATCCTCAAGAAAAGCCCCAGACAATGGATCTGATAGGACACTTCTGAGAGATGGTTCACTAATGAAGCTGCCCTGAGATTCAGAAGGTGCTTCCGAATGATTCGAAACAGCACGTTCTTCAGCACACAAGTCATCCATAAATTGGCTTGCAGATATGGGTTGGTACATCTGGGGTACGCAGTGCCCAGCTGCTGCAATAGGAGAGCAATCCAGTATAGCATTGGCATGTGGCATTAGCCTAAAGGTGAGTGATGCTCTAGTCTCATTTGTGATCCTGTAGCGAGAAGTTGGGCGCAAACCAGCAGTAACATGGCTAAGTGCCCTTCCAGTCAGAAGCAACAGGTCACCAGGCCCTGAAATGCCATCTGCTAGGTACCATTGGCCATTTGGGTCACAAACCTCAATTCCTGGATGATCAGAAGCAATGAGCACAAGGAAGCCCCTGTCAACTTGAGGCACTGAAGAGCCGAGACAGGCAGTAGAAGAAGCATGATCGGTGTGGAGGTGTTGGTTGGAATAAGCCACCAGCAACTCCGAGGATGAGACCTCATTAACAGGCAATGGAGTATCATCGAGCAAGTGGTCGAATACATTGGTACGAAGTCGGAGATGGCGAGCAATCGCAGAGAGAGCAGCGCGGGCAGCCTCACCGAAACACCTGAAGGCGTCGTCCATGCAAGCAGGGACCAGGTCGCCGCCGCCGTCATCGGATGTCCTTGCGCTGCCCCCTGCGCGGTAGAGGTAGAAGGCGGGTTGGTCGTTGGCGCGGAAGAAGGCGCGAGCGGATTGGAGGGCGCAGCGGAGGATGGCGGCGTGGGCGTCGGGGAGGTCGAGGAGGGCGGCGCCGTGGCGGGTGAGGGAGGCGGAGAGGGCATGGACGGCGCGGCCGTAGGCGGGGGTCGCGGCGCCATCGTAGGGCGCCAGGTCGTGGAGGCGCACCCTGGCGAGTCGCCCGCTGCTGCTAGCGGCGGCGGGAGGTGGGGAGGAGGCCGCCATGAGCATGGGAGTGGGAGGAGCTCATGGTGGCTACTGTTCCGCCATCTCCGCCTCCCTCCACTCCACAGCGTCTAGTGCTCCTCAACCTGCAAGCCTGCAAAAGA

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.924873
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa02LNT0192000.1 2 35668396 C A
Osa02LNT0192000.1 2 35668767 A T
Osa02LNT0192000.1 2 35668943 A G
Osa02LNT0192000.1 2 35669127 G A
Osa02LNT0192000.1 2 35670311 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
Osa02LNT0192000.1 osa-miR415 Cleavage 5.0 9.722 1 21
Osa02LNT0192000.1 osa-miR418 Cleavage 3.5 8.864 1 21
Osa02LNT0192000.1 osa-miR1861g Translation 5.0 11.033 1 22
Osa02LNT0192000.1 osa-miR1861h Cleavage 5.0 11.033 1 22
Osa02LNT0192000.1 osa-miR1861j Cleavage 5.0 11.033 1 22
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa02LNT0192000.1 2 nan Morphological trait Seed C747 C1445
Osa02LNT0192000.1 2 rbr2 Resistance or Tolerance Blast resistance RM213 RM208
Osa02LNT0192000.1 2 rbr2 Resistance or Tolerance Blast resistance RM213 RM208
Osa02LNT0192000.1 2 rbr2 Resistance or Tolerance Blast resistance RM213 RM208
Osa02LNT0192000.1 2 rbr2 Resistance or Tolerance Blast resistance RM213 RM208
Osa02LNT0192000.1 2 gn2.1 Morphological trait Panicle/flower RM250 RM208
Osa02LNT0192000.1 2 gw2.1 Morphological trait Seed RM250 RM208
Osa02LNT0192000.1 2 pl2.1 Morphological trait Panicle/flower RM250 RM208
Osa02LNT0192000.1 2 sn2.1 Morphological trait Panicle/flower RM250 RM208
Osa02LNT0192000.1 2 qCHR-2 Others Others RM263 RG520
Osa02LNT0192000.1 2 qDLR2-1 Resistance or Tolerance Other soil stress tolerance RM525 RM406
Osa02LNT0192000.1 2 qDLR2-1 Resistance or Tolerance Other soil stress tolerance RM525 RM406
Osa02LNT0192000.1 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