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

>Osa05LNT0304800.1

GAGGGCAAACTAAAATGGGTTTGCTGATTCATTTATATTATTTGCTTACATCAGAATAGTAGGATCCTAATAACACATCACAGATGATCACACATACAATGGTAGAATGGATTTCAATGCATTGACATCCATGTTCAATTAATCAGTTTGGCAACAATCTAATATGAAACAATAGCAATGCCAATCTCATCAGCTACATCTGAGATGTAATTTGAATATTAATTCTTAAGCTTAGATAACCAAAGAGGTAGTGCAACTAGAAAAGAGTTGACGAATGGTATCGCAGGCAGTCCGACAACACCTCAAATAATATGCAGATGAGCCAGTTGACTTGCAGATCCTGCTTTGGTGTTGGTCATTTACATTCTTTATTTGTCACTCTTCACCTAGTAGACAGAGCACCAATTGATTGAGAATCTACTGCCTTGGCTATCCCAATGCTTGTCATTGTCCTGAGAGAGAGAAATGGCTCCCTGGCTTTGCAGTGAGTAGAATGTCTGAGGTGGTGCCTATGATGGCTTGAAATGGAGCCGAGCTAGATTGGTTCAGTACTGGAACAGACATTGCAATGACTTCTTGGAACATGCCTCCAATCTTCATGGAGAGGTAGCTTGCCTGTAAGTCTTGCCCGGGTCCTTCTTCACCTAACTTCTGCATTAACCTGAGGAGGGCAGCGCGGCCCCTGGCCATCGTCGCGCCGGAGCAACTGCCATGGGTGAGGTGGCGCTGGATCTGGCTGCCCCGGACTCATTGCCGGCAGTCTGGTGTCCCCATTGCTCTGGCGAGTAGGGCAAAGGAGAGGATGTTGCGGAGGGAGGGCTAGAGCTGGAGCAGCAGGAAGAGGGGGGAGAGCCGCAAGTACGGCGGCAGCACCGAAGTGGGGAACATGACCTCCAGACGTGGCGACAGGGCTCGTAAGTGGAATATTCGGGGGAGTATGGAGCAGGTGGCGCTGGATCTAGCTGACCCGCGTTCATCGGCGTCAGAGCCGGTGGATCCGTTGCTCCGGCGAGGAGTTCAAGGGGAGGAGGAGCAGGAGGATTTGGACGCGCCGAC

Coding Potentia
Explanation CPC Score
noncoding -1.31843
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa05LNT0304800.1 5 15776568 C G
Osa05LNT0304800.1 5 15777157 A G
Osa05LNT0304800.1 5 15777557 C T
Osa05LNT0304800.1 5 15778094 T C
Osa05LNT0304800.1 5 15778231 A C
Osa05LNT0304800.1 5 15778529 T C
Osa05LNT0304800.1 5 15775893 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
Osa05LNT0304800.1 osa-miR5530 Translation 5.0 16.292 1 21
Osa05LNT0304800.1 osa-miR1855 Translation 4.0 16.771 1 21
Osa05LNT0304800.1 osa-miR827 Cleavage 3.5 21.881 1 21
Osa05LNT0304800.1 osa-miR3980a-3p Cleavage 4.0 17.982 1 21
Osa05LNT0304800.1 osa-miR3980b-3p Cleavage 4.0 17.982 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa05LNT0304800.1 5 yl(t) Morphological trait Shoot/Seedling nan nan
Osa05LNT0304800.1 5 QKw5 Morphological trait Seed RG182 RG13
Osa05LNT0304800.1 5 qLTG-5 Resistance or Tolerance Cold tolerance RM249 RG13
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