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

>Osa12LNT0122800.2

ATTCAAACAAGCATGGTGTTATTGAATTCTCATATCTAGAGAGAATTTGACTTAGTGAAGCAAGCTGCCAAACCGTAAACCAACATGAATATTTATAAAATTTTCATATACTCCGTTACAGATAGCGTTTTATAACTTCATTAATGCGGGTGTACTGAACATCTGGGTAGAGCAGAGTTGCTTCGGCTCCATTGTCACCAATGTCGAAGTTTGTTAAGCAACCTTCGTAGAAAATGTGGTAGAAATGTGTTACTCCCACTTGATGAGCAAAATCTGTATCTTTCATTGAAGCCAAAAATTCATCACCGTGTATGTGGAATTTGGTAAGACTTTTTCCAGAGAGTTTTTCCCACATCGCGATCAGCTCGTTCTGAGTGAGGCAATTATCCTGTGGTCTTATGTATATTGTCTTGTTCAAGGTGCGAGGATCATCGATTGATTTGATTGTATATGTTCCCACATCATCTTCATCCACAAAAAACACTTTGACGTTACCATCCCCGTACACACCAACTCTCTCTTTGGGAGGGAGGAGAGTTTTCATCTGACAGAGGTTAGGACTGAAGTAAGCTTGATGTTCCCAGCTTGTTTGATGGCCTCGACGAGCTTGATCTGGAGCATGAGGTTATGACTGCGGATGTGGGCGCCGGACATGGCGGAGACGACGACGTCCACCTGCCGGATCGCGGCGACGAGGCCATCGTGGTCGTCAAGCGACGCCTCGAGGAGCCGCGCGCCCTGCGCCTTGAAGGCCAGCAGGATCTGGAGCTTGTCGATGTCGAGGCCGATCTCCGGCCGGAGCAGGACGGAGGTGGGGTGGCCCGCCGCCAGGCTCGCCGCCACGATCCGCCGGCCGATGTGGCCGGTGCCACCGACGATGAGGACCCGGCTCTTCTCCATGGCCATGGCTCTTAATTAGCTCTGATGAGTGCCACAAACTAACCACGCTATCGTGCACT

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.364747
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa12LNT0122800.2 12 9286845 C T
Osa12LNT0122800.2 12 9287262 A T
Osa12LNT0122800.2 12 9287639 A T
Osa12LNT0122800.2 12 9287787 C T
Osa12LNT0122800.2 12 9288169 T C
Osa12LNT0122800.2 12 9288297 G A
Osa12LNT0122800.2 12 9288444 G C
Osa12LNT0122800.2 12 9288821 T C
Osa12LNT0122800.2 12 9289047 A T
Osa12LNT0122800.2 12 9289051 T G
Osa12LNT0122800.2 12 9289551 T G
Osa12LNT0122800.2 12 9289650 A C
Osa12LNT0122800.2 12 9289715 A G
Osa12LNT0122800.2 12 9289858 T C
Osa12LNT0122800.2 12 9290211 G A
Osa12LNT0122800.2 12 9290228 T C
Osa12LNT0122800.2 12 9290247 A T
Osa12LNT0122800.2 12 9290264 T G
Osa12LNT0122800.2 12 9290471 T A
Osa12LNT0122800.2 12 9290827 C T
Osa12LNT0122800.2 12 9291324 G C
Osa12LNT0122800.2 12 9291343 A G
Osa12LNT0122800.2 12 9288726 C A
Osa12LNT0122800.2 12 9290984 A 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
Osa12LNT0122800.2 osa-miR399a Translation 5.0 20.841 1 21
Osa12LNT0122800.2 osa-miR399b Translation 5.0 20.841 1 21
Osa12LNT0122800.2 osa-miR399c Translation 5.0 20.841 1 21
Osa12LNT0122800.2 osa-miR162b Translation 4.5 24.954 1 21
Osa12LNT0122800.2 osa-miR816 Translation 4.5 14.607 1 20
Osa12LNT0122800.2 osa-miR1435 Cleavage 4.5 13.227 1 20
Osa12LNT0122800.2 osa-miR5151 Cleavage 5.0 9.366 1 22
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa12LNT0122800.2 12 qDLA-12-3 Resistance or Tolerance Blast resistance RG463 RZ816
Osa12LNT0122800.2 12 nan Resistance or Tolerance Other soil stress tolerance RG9 RG241
Osa12LNT0122800.2 12 nan Resistance or Tolerance Other soil stress tolerance RG9 RG241
Osa12LNT0122800.2 12 nan Resistance or Tolerance Other soil stress tolerance RG9 RG241
Osa12LNT0122800.2 12 nan Morphological trait Seed RG543 RG81
Osa12LNT0122800.2 12 nan Physiological trait Eating quality RM247 RM179
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