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RiceLncPedia: a curated knowledgebase of rice Long non-coding RNAs
Sequence

>Osa12LNT0128400.1

CCACAAGATCAAAAGTAGTTATATCCAACACAGCAGAGTGTGCAAACACTTGCTTCAGTGTACATATATACGAGTACATTTTCTTAGCATTCATACAAAACAAGTCTATTTAATTAGCAAAAATTCCCAAGACTCTTGTATGATGATGGTCCACCGATGTGTAGATGAAATAATTCAACCAACAAGCGACCACCTTCAACATGCAACTCTTCATGTCCAGGATAGCATCAGTAGCTCTAACAAAAAGCTAGCCATTTGTACTCTCCTCATTTAAGTTGTTGAAGAAGTTGACATGACTAAGGGATTTACATTGACTTGTTGTCCATCTCGAGAATTAGCAAGTAATTCAGTCAACTTTTCCACTTCCTCACCAAGTGACTCAATTTTTCTAATAGCAGTTCTAACAAAAATCTAGCAATTCTGTAAAACAACAGAAAAGTAAAAGATTGCGTCTGAGAAGAGGGTGAAATGGCTTTCTCTTTTCATTTGCATTAACAATTATTCCATTTATACCTGATCTAACAGGAGAAACATATGTTGGATCAATAGTAATGTTTGTGCCGCCACCTAAATCAGGACATTGGTCTACATATTCAATTTCATTGTCAGGTTAAATTGTGCCTAGGAAGGTCCATCCATCTCCTATCCAAAGCTGATATTGACAATCAAATTTCAGAGGCCACTTAAAATTAGTTTGTTTCAGTGGTGTTTTTTGTGCGTGAAGTACAAGTACTCACCAGTGTGCCCATGGGAAAAAGATAAAAAACATTGCACAAGAAAAATATAACATGAGGATATAACATTTCAGCCTTTTAGCACAGTACTCATGGCAAGCAGGAGGATACTAACGGTTGTACATTTGTTGTTCGGGACTTCTGTTCGGTAGATGCTCAGCAACGTACACCTTGGATGATATCTAGGTTGATTGCAGCAAAATCGGTAGTGGACGACTAAACTGAACAAGTGGATATCCGTGGTCATTCCTTGATCTCAATGCAGAGGGTGGTGGTGAACTGGTGAAGAAGGAAAAGGGCAGAAAAGCATCTGAGGAGGAAGAAGACGAGGCGGATGCGGGTAGGCAGCATCGGAGGAGGACGGTGGAGGCGGTAGCAACGGAGAAGTAGAGGAGGAGGACGAGGAGTGGACGCCGGCGCATGGAGTCGAGGGTTTCGGAGGTGGAACGGATGGAGTCGAGGCTTTGGTGCGGAGGCGAGGGGCGCAGGAGGAGGAATCGGTGGCCGCGTAGAGGAGTGGAGCTCGTCGGGGAGAGAGTGCGGCTGCGGGCCTGCGGCGGCGATGGGGAGGCGTTGGGCAGCGACAGCGGAAGCCGGCGGGCGGAGTCGACGGCGGCGTGTGGGTCGAGTCGGAGGCGATGGGGAGGCGGCGGAGGAGGTGGGGAAGAGGGTGGAGTCAACTGCAGCGATGGGAAGGCGTTGGGCGGAAGAGGAGCCGACAGCGGAAGCCGGCCGGCGGAATCGAAGGAGAAGTAGAGGAGGATGGCGAGGCGTGGAGTCGGCGCAGATGGAGCATGCGCGGATCTGTGGGAGGCGTCGGGGTCGGGCTCGCCGGAGGAGGGGAGGCGTCGGGGTGGGGCTCCGGCGGTGGAGGGGAGGCGTCAGCAGGAGGAGGACGGCGGCGCAGGAAGAGGAGGCGCACAGATGGGGAATCACGATGAATTTTTGTGCG

Coding Potentia
Explanation CPC Score
noncoding -1.01479
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa12LNT0128400.1 osa-miR5516b Translation 4.0 13.61 1 21
Osa12LNT0128400.1 osa-miR5516b Translation 4.5 23.521 1 21
Osa12LNT0128400.1 osa-miR418 Cleavage 5.0 18.945 1 21
Osa12LNT0128400.1 osa-miR1857-3p Translation 4.5 18.278 1 21
Osa12LNT0128400.1 osa-miR2118a Cleavage 5.0 17.655 1 22
Osa12LNT0128400.1 osa-miR2118b Translation 5.0 23.344 1 22
Osa12LNT0128400.1 osa-miR2118b Cleavage 4.5 17.655 1 22
Osa12LNT0128400.1 osa-miR2118c Cleavage 4.5 17.655 1 22
Osa12LNT0128400.1 osa-miR2118d Cleavage 4.5 23.565 1 22
Osa12LNT0128400.1 osa-miR2118f Cleavage 4.0 23.565 1 22
Osa12LNT0128400.1 osa-miR2118f Cleavage 5.0 17.655 1 22
Osa12LNT0128400.1 osa-miR2118g Cleavage 4.5 17.655 1 22
Osa12LNT0128400.1 osa-miR2118h Cleavage 4.5 23.565 1 22
Osa12LNT0128400.1 osa-miR2118i Cleavage 4.5 17.655 1 22
Osa12LNT0128400.1 osa-miR2118j Cleavage 4.0 23.565 1 22
Osa12LNT0128400.1 osa-miR2118j Cleavage 5.0 17.655 1 22
Osa12LNT0128400.1 osa-miR2118k Cleavage 4.5 23.565 1 22
Osa12LNT0128400.1 osa-miR2118l Cleavage 5.0 17.655 1 22
Osa12LNT0128400.1 osa-miR2118m Cleavage 4.0 23.565 1 22
Osa12LNT0128400.1 osa-miR2118m Cleavage 5.0 17.655 1 22
Osa12LNT0128400.1 osa-miR2118n Translation 5.0 23.344 1 22
Osa12LNT0128400.1 osa-miR2118n Cleavage 4.5 17.655 1 22
Osa12LNT0128400.1 osa-miR2118q Cleavage 4.5 17.655 1 22
Osa12LNT0128400.1 osa-miR5148a Translation 4.0 10.956 1 24
Osa12LNT0128400.1 osa-miR5148b Translation 4.0 10.956 1 24
Osa12LNT0128400.1 osa-miR5148c Translation 4.0 10.956 1 24
Osa12LNT0128400.1 osa-miR5151 Translation 4.5 13.303 1 22
Osa12LNT0128400.1 osa-miR5516a Translation 4.0 13.61 1 21
Osa12LNT0128400.1 osa-miR5516a Translation 4.5 23.521 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa12LNT0128400.1 12 qtl12.1 Resistance or Tolerance Drought tolerance RM7195 RM28166
Osa12LNT0128400.1 12 qtl12.1 Resistance or Tolerance Drought tolerance RM7195 RM28166
Osa12LNT0128400.1 12 qtl12.1 Resistance or Tolerance Drought tolerance RM28048 RM511
Osa12LNT0128400.1 12 qtl12.1 Resistance or Tolerance Drought tolerance RM28048 RM28166
Osa12LNT0128400.1 12 qtl12.1 Resistance or Tolerance Drought tolerance RM7195 RM28166
Osa12LNT0128400.1 12 qtl12.1 Resistance or Tolerance Drought tolerance RM28048 RM511
Osa12LNT0128400.1 12 qtl12.1 Resistance or Tolerance Drought tolerance RM28048 RM28166
Osa12LNT0128400.1 12 qDLA-12-3 Resistance or Tolerance Blast resistance RG463 RZ816
Osa12LNT0128400.1 12 nan Resistance or Tolerance Other soil stress tolerance RG9 RG241
Osa12LNT0128400.1 12 nan Resistance or Tolerance Other soil stress tolerance RG9 RG241
Osa12LNT0128400.1 12 nan Resistance or Tolerance Other soil stress tolerance RG9 RG241
Osa12LNT0128400.1 12 nan Morphological trait Seed RG543 RG81
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