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

>Osa12LNT0123400.1

GGCTCACAAAGGGAGTCAAGCTTTCATGTATGTAGTTTCAGTTTATTACACTTGGTCGACCATGAAAAATAGAAATATCACTTCTGGCAAACAAAGATTGGCCTAACAACAAGAATTCATGGAGAGTTTTTGTTCCCCTTGTATTATTTTTCGCTCTGAATAATTAAGAAAGCAGAAATGTTACCTAAAACAACAGGATGCTAATTGTACTCTACTCTGGAATCTTGCCAAATGTCGCTTTTGCTCTCCTCTTTACGAAGGACCTGATCGGTTAGTCCCATCAATATGGGTTTTTACTTTTTTTTTTCATTGAAGACAAACTCTTTAACTCCTTTTGAAACAATTCCCCCGGAGAGACTTGATCAGCAACTTGATATTCAGTCTTGTCATCTCATCACCAGCGAAACATACTCCTGTCTGAGACTCTCAGCTGATACTCTGCGGTAACCAATAATTCCAAAGGCACCTTGTCAGCCTGTCATCCAGTTTTTTGAAATAACAGCAGCGATAAAAGAATAGTATGACTAACAAACCTCAATATTATGAGCAAACAAGAGTAAACCAACAAGTACATTGCATCTCAGCTATTAGTTGATGGAGACTTTGGTCAGTTCAACATCGTTTTCTCTATTGCCACATGTATATATCAAAAACTAATTTCTTGGTGGTCAAAAAAAGTACACTATTTTGCTCTGACATAATGAAAATATTTTCCTGTTGCAATGTAGGTGAACTGCAATGGGACATCATTAGTGCAGAGATAAACAATGCATGAAAATATAAATAATTTCGGTTGCAGACGTAACTTTCAAAAGTAAACAAGATTTCTAAATGATTCGGATTTCTCTCATCCTAAGGCTTAGTCCAGAATAGCGGCTAAGAAAGTCCATAACACCTGTTTATAGATCACACTATTTGCTCTGGTAGAGTGCTAGGTGCTAAAGACTATTCCATTGGCAGGCCTTCAGCTTCTAAGCCATAGCTAAATTTGAATTTTGGAATTAATTTAGAGGTTTTCTCGTTGCTTTCCCTCCTTAAATTTTAGATTGCAAGGGTATAACTATAAAAGTCTAATCCTATGACAATGCTAGTTTACTTCACTCAGCTTATAAGCCGCCAGAGTTTAACTAACGAGACATTAAATTTTGTTCAGAGCAACTATCTTCGAAGTTTTGGACAAAATTAAAAAAAAATGAATTATAACACTCACTGTCAGTTTAGGGATCTTTCCGTTTCTGAAAAAGAGATGTGCTTAAGATTTGAATGGTTGGAAAGATGGGGATTAATCAAGAGACGCTTGCATAACTCTTAATTTCTATAAATAAAATAGTGGAAAACTCTAGGTTTCCAGGTTTATGTAAGGGATGCTAGGTGGAGGAATACATGTGGATAAAAATAGGCAGGAAATGTGCAGGACAAAATTAACACAGCAAGAAGAGAACTTTCATGTCTTCTCAAAAGCCCGTAAGGGTGTTATCCCTTCCTTGCAATAGAGATTTTAGATTGCATTGCATTGAAACGAGCACATAACAGTACTCCATGGATTTTTTGTAAACTGAGAAAACCAGTAACTAAAAGCATGCTTCGTCAAGCATTTCAATTGGATGGCAAGCATGTAAGATGATTTTAACCAAAGAAAAGGCATATGGAGTGGCTTATTTACAGAAAGTTAAGGAAAATGACTTCATATTGGCTGTTCTGTCCTGTCAGCAAATTTAAGTCATGTATAATAAAAACTACCCACAAAAACATCTTGAAAGCAAAGTATATAGACACACCTTTTGCTTGCTCTATCACTTCAGATTAGCAGTTTCTTTCCCTTTTCCATATTCCACACCAGATCACAGCAAAAAATGAAACACATTTCACAAACAACTCAGGGACATCGCTTTGGTGCAATCAAAGCATAACAAAGCATTATTTGACCTGTACAGACTCAATAACACAAGCAATACAAAAACACAAATTTGTTTGGTCAGCGTACTGGAGATTAATTAGTAACCTGATTTCAGTCCGAGATTGCAACAATTGGATCACATCGATCCCCAGCACCACTGCACCCACCACGAATGGCATGTATCCAATTAACCCTATATTCTATAGCACTCAAGAGTTAAGATTCTCACCTAGAGATAATAGCACGTGGGTTCACAAAATCTGAATAATTGGAGTTACAATCCTTAAAGCATCAATCGGACACTATGCACCTGGGACAGTTTCCTGTCAGCCAGCTTGTAAACT

Coding Potentia
Explanation CPC Score
noncoding -1.18657
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
Osa12LNT0123400.1 osa-miR5541 Cleavage 5.0 15.703 1 21
Osa12LNT0123400.1 osa-miR5827 Translation 4.5 16.699 1 21
Osa12LNT0123400.1 osa-miR156a Cleavage 5.0 13.247 1 20
Osa12LNT0123400.1 osa-miR156b-5p Cleavage 5.0 13.247 1 20
Osa12LNT0123400.1 osa-miR156c-5p Cleavage 5.0 13.247 1 20
Osa12LNT0123400.1 osa-miR156d Cleavage 5.0 13.247 1 20
Osa12LNT0123400.1 osa-miR156e Cleavage 5.0 13.247 1 20
Osa12LNT0123400.1 osa-miR156f-5p Cleavage 5.0 13.247 1 20
Osa12LNT0123400.1 osa-miR156g-5p Cleavage 5.0 13.247 1 20
Osa12LNT0123400.1 osa-miR156h-5p Cleavage 5.0 13.247 1 20
Osa12LNT0123400.1 osa-miR156i Cleavage 5.0 13.247 1 20
Osa12LNT0123400.1 osa-miR156j-5p Cleavage 5.0 13.247 1 20
Osa12LNT0123400.1 osa-miR166i-5p Translation 4.0 14.7 1 21
Osa12LNT0123400.1 osa-miR2121a Translation 5.0 17.905 1 24
Osa12LNT0123400.1 osa-miR2121b Translation 5.0 17.905 1 24
Osa12LNT0123400.1 osa-miR2863a Translation 4.0 21.967 1 21
Osa12LNT0123400.1 osa-miR2873a Cleavage 5.0 19.738 1 24
Osa12LNT0123400.1 osa-miR2929 Cleavage 5.0 15.831 1 21
Osa12LNT0123400.1 osa-miR5340 Translation 5.0 14.902 1 23
Osa12LNT0123400.1 osa-miR5496 Cleavage 5.0 18.912 1 21
Osa12LNT0123400.1 osa-miR5524 Translation 4.5 16.15 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa12LNT0123400.1 12 nan Morphological trait Seed RG543 RG81
Osa12LNT0123400.1 12 nan Physiological trait Eating quality RM247 RM179
Osa12LNT0123400.1 12 qtl12.1 Resistance or Tolerance Drought tolerance RM7195 RM28166
Osa12LNT0123400.1 12 qtl12.1 Resistance or Tolerance Drought tolerance RM7195 RM28166
Osa12LNT0123400.1 12 qtl12.1 Resistance or Tolerance Drought tolerance RM7195 RM28166
Osa12LNT0123400.1 12 qDLA-12-3 Resistance or Tolerance Blast resistance RG463 RZ816
Osa12LNT0123400.1 12 nan Resistance or Tolerance Other soil stress tolerance RG9 RG241
Osa12LNT0123400.1 12 nan Resistance or Tolerance Other soil stress tolerance RG9 RG241
Osa12LNT0123400.1 12 nan Resistance or Tolerance Other soil stress tolerance RG9 RG241
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