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

>Osa02LNT0164500.1

CCCCACTATGCCATCCCAATGCAGCATTGCACACACTGCCACCCCAAACAGCAGTTATAGACACGAATCACCGTGATGTTCATCAGTCACCACCCCGGTTAGCTACTTTGCTTCAATTATAAAAAGGAGATAAACCATTCTGGTTCTGGGTATCGAAGTCTCCAGGCAAAATGTGAGAACATCTGTGGACTCAGGGAACCAGAGGCTCTTTGCAAAAAGTGAGACGCCTTGGACAAAACGTGTAGGAGAGGACCAGGGCGCCTTGCCCACCTTGCAAACACCCATGCTGTTCACCTAGCCTCCGTGCTTGCAGATGCCTTCAAGGACGCCAGAGCTTCCCGTAATGCATCCTCCATCTCAGAGTTCCCTGGATCCAACTTGAATCCATCGTAAAGTGTTTCGCAAGCACTCTCATAGTCCTTCAGTAGCATCAGAGCAGCACCCTGTCGGTAGTAGGCCTTCAGCCAGTCAGGCCGCAATTTCCTGCATTCATAAGCATCCAACAAAGCCTTGTGTCCATCACCCATGTGATGCCAGCAAAGGCTTCTATTTGAGAACAAGGTTGCATCATCAGGGTAAAGGTCCACTGCCTGACTGTAGAATCCTGTTGCAGAAAGATAATCCTTTTTCTCGACCGCCTTATTACCCAGTGACTTTAACTCTGTTGCTTTCCTTTTACTGACAGGCTCACCCAGGGATGCTTGATCGTAGCCATAATCGAAAGGGTCACTCCAATCAAAATTGAATGCAAATTGGAAGCTCCAAGCTGGAGTTCCAACCTGAGAGTGAGGGTTCTCGAATGCTACCAGCTTACTCCCTTCGCTGGCCCATTTCGCGGAAGCCATGAGGGTCTCCATCTGAGCCTGCGTATCTCCTTGACAGCCCGACGAGCAGAAGCATCCATTGGTCACCA

Coding Potentia
Explanation CPC Score
noncoding -1.22974
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa02LNT0164500.1 2 17271789 T C
Osa02LNT0164500.1 2 17271700 A G
Osa02LNT0164500.1 2 17271538 C T
Osa02LNT0164500.1 2 17272981 C T
Osa02LNT0164500.1 2 17273006 A G
Osa02LNT0164500.1 2 17273810 T C
Osa02LNT0164500.1 2 17274162 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
Osa02LNT0164500.1 osa-miR5534b Translation 5.0 15.103 1 21
Osa02LNT0164500.1 osa-miR160f-5p Translation 4.5 16.965 1 21
Osa02LNT0164500.1 osa-miR2122 Translation 4.0 21.696 1 22
Osa02LNT0164500.1 osa-miR5144-5p Cleavage 5.0 13.197 1 21
Osa02LNT0164500.1 osa-miR159b Translation 5.0 10.418 1 21
Osa02LNT0164500.1 osa-miR812l Translation 4.5 14.768 1 24
Osa02LNT0164500.1 osa-miR812m Translation 4.5 14.768 1 24
Osa02LNT0164500.1 osa-miR812k Translation 4.5 14.768 1 24
Osa02LNT0164500.1 osa-miR159a.1 Translation 5.0 10.418 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa02LNT0164500.1 2 np2.2 Morphological trait Culm/leaf RM324 RM262
Osa02LNT0164500.1 2 qSS-2 Physiological trait Sterility RM301 RM263
Osa02LNT0164500.1 2 nan Resistance or Tolerance Drought tolerance RG83 RG171
Osa02LNT0164500.1 2 qPH-2 Morphological trait Dwarf RG324 RG83
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