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

>Osa02LNT0163600.1

ATCCACACTTCCACAAAAAATGGTTGAGAATAAATTACATGTTCCAAGCAATTCCACGACTTCTGGATCAATAACACACACGGAGCTGGCAAAATGGAGCTGGAAAAATCTAGAAGTATCACACATTGACACACCACTACAATTATAGGATAGATGAAATGAATACATTGTGAAACAACAGTCATCACTTCTTCATTTTTCCATCTCTATCATTCAGTCAAGCATATTTGATCCCTTCTATAGATTTTTATAGACTTCTATTTTGTTATCCTCTCCTGCAGTAAGCTGTGTGCATCTTTACAAAGATCAGTGCTCTCAGGGTCACTTGCTTTCGTAAGACGCAATTGCATACGTCTTAGAGTGATTGTCAAAATAAAAGAGTTTAGTAAAAATGTTAGTTAGTATCAAGCATATAAATATATTTGTATCAAGCATAGCAGTGCAGAATATGGTCAAGAGAATAAATATATTTGTATCAAGCATAGCAGTGCAGAATATGGTCAAGAGAATAAATCAGGGATCATGAACAGTTCAAAATGTGCCATCAATGGGGCTATCCTATATTTCCTGAAAGAGTCATCCACTGTTTTTCCTTTTTGATAGCAGTCAATGACACAACGATAAAATGTTCAATGAGATAAAAAAGTACCAATAGGATTAAACTGTTTTTTTACCATCATGTTTTTACAGTGAGTAACGAGACCAAAACTCCAATTGGTTAATTAGTACGTACCAATTAGAGAAATCTTCAAAAAATGAACCAAAACTCCAATTGGTTAATTAGTACGTACCAATTAGAGAAATCTTCAAAAAATGAACCAAAACTCCCCGCGATTACCTTCCACAATTCCACCTTTTCTTCTCTACACAAGCCTTGTTGGCGAGCGGATCGCAGCCTGTGCGAGGCCAGTGCCGGGGTTGAGAAATCCGACCACCGGGACTTGGAATCTCGAACTCGCACGCGGCCAGAGGAAGGGGCTGGTGCCGGGATCAACCACGAAAACAGGGCGGCATCACTAAGGCCAGATCGGAGCAAGAGGGAGGAGCGACGCTTGCGTCCTCACGGCCGAGGAGCTTGACCGGAGTTCTTGTCTTCGGCGACATTACCTGAGACGCCGGGAGCTCGTCGGGCCCGAGTATCCTCCAAGGCCACCATGACCCGTTCCGTCGCCGGGGATCATCGTGTGGGTGCGGTGACGGAACGGTGACGTAAATCCTGGATGACGACGGATGCGACGACGGTGATGGGGATTGGTTGAGGGCGAGCCGGCAGCGGGGATCGGTGGCGGCGAGACGACGGATGCGACGAAGGCGGAGCGGCGGCAGTCGAGGGTGGCGGCGACGACGGATGTGACGACGGCGGAGCAGCGGCAGTCGAGGGCGGCGGCGACGACGACGACGGATGCGACGATGGGTGACGGCGAAGTGGAGGCAGTCGCGGGCGGCGGCGACGGTGGTGGCGCGGGGATCGGTGGCGGCGAGACGACGGATGCGACGACGGCGGAGCTGCGGTAGTCGAGGGCGGCAACGACGGCGGTGGCGCCGCGTGAGAGGGAGAGATTAGGGTTGGGGAGGGGCGGGGACGCGTGAGAGCGAGAGAAAGGGGGCGGAGAGGATGGCGCGGTGGAGAGGTGGAGACGATGC

Coding Potentia
Explanation CPC Score
noncoding -1.27645
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa02LNT0163600.1 2 16401314 A G
Osa02LNT0163600.1 2 16399458 C T
Osa02LNT0163600.1 2 16397842 A G
Osa02LNT0163600.1 2 16401453 A G
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa02LNT0163600.1 osa-miR818f Cleavage 5.0 16.759 1 21
Osa02LNT0163600.1 osa-miR414 Cleavage 4.5 17.581 1 21
Osa02LNT0163600.1 osa-miR418 Translation 5.0 12.491 1 21
Osa02LNT0163600.1 osa-miR1858a Cleavage 4.0 11.666 1 21
Osa02LNT0163600.1 osa-miR1858b Cleavage 4.0 11.666 1 21
Osa02LNT0163600.1 osa-miR1864 Cleavage 4.0 12.433 1 24
Osa02LNT0163600.1 osa-miR1862d Translation 3.0 8.079 1 24
Osa02LNT0163600.1 osa-miR1862e Translation 3.0 8.492 1 24
Osa02LNT0163600.1 osa-miR2867-3p Cleavage 4.5 20.133 1 20
Osa02LNT0163600.1 osa-miR2867-3p Cleavage 5.0 19.132 1 20
Osa02LNT0163600.1 osa-miR2930 Cleavage 5.0 13.335 1 22
Osa02LNT0163600.1 osa-miR5075 Cleavage 3.5 22.278 1 21
Osa02LNT0163600.1 osa-miR5075 Cleavage 4.5 16.147 1 21
Osa02LNT0163600.1 osa-miR5075 Translation 4.0 8.917 1 21
Osa02LNT0163600.1 osa-miR2867-3p Cleavage 5.0 11.808 1 20
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa02LNT0163600.1 2 np2.2 Morphological trait Culm/leaf RM324 RM262
Osa02LNT0163600.1 2 qSS-2 Physiological trait Sterility RM301 RM263
Osa02LNT0163600.1 2 nan Resistance or Tolerance Drought tolerance RG83 RG171
Osa02LNT0163600.1 2 qPH-2 Morphological trait Dwarf RG324 RG83
Osa02LNT0163600.1 2 d50 Morphological trait Dwarf nan nan
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