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

>Osa06LNT0356200.1

CCTATTCCCATCCAATATATAAATTAGCCTTTGAGCATCTTATTATTAGAAAAACAAGCATTAAATGGAAAGCTATGTATAAAATTAAATTAGGATCAATATTCCCTTTAGCAAACATATTATTAACACATTTAATAGAAGGGAAAATTGGAACCATGCCATTATAATTTTGCAAAATTTGAGATATTATTAAATATATTTCTATTATCCGAAGCAACACACGGATAACTGATATTTGATAAAGCTTTAATTGTTGGCCAATTGTACGACGTGAATCATAGATTACTCTTCTCGAAGTTGGATTCATTTCCATTTTATCCATGGCCACGCATTCGGTGCTGGAGATGGGATGAACATGATTTGTGGGCACTCTGCCTTCTGAGTAAGCTAAAATATGTACCAATGCATCATGCTTATAGTATCTGCAGGTGTCATAGTTGAACAATTTGTGGTCACAAAACAATCACTAGTGTAAATGCGACTTTAGTAGCATTTTTTTCATACTGTCATACGAAAGAAGATAAACGAGCTTCATTGATATGGAAATACATATACATATGTACTCAAACTTTAGAAAAATAAAATGTAAGAAACTATCTAGATGAAGGTTCACCAACTATACTTTTTCCCACAAATATTATATACGTAATATACTCAAAATCGTCTGGATATATACCTCTGCAGCAACATGCAGACATGGCATACGGAATGCTTTATTTTGTTGATGACATATTTCACAAAATAACCATAGAAAATTAATTATTGGCTTCCCCAAATGCAGACTTGATCTCTCTTTTGAAAAAAAAGGAATCATAGAGAGGTTAAGAATTATTTCAAAAAAACACACACACAACCATATATTCGAAATCGTGTTCACATATAGCTCCACAACAATGTTTTGGAAGGACACATGTATGCCTTATTTTACCACTGGCTTATTACCACAAAATAACCACAAGAAATTAATTGTTTGCTTGCTCACGCGTAGCGTGATCTTTTTCAAGACAAAATTATTTAGAGGTTAATAATTATCATGCAACCCAATGCAAGAGTACGCATGTCTATTAATTAGACGTTGATACCACTCTTGTATTCAGAGCCGGCCGTAAAGCTTTCGGGGATGACGTCGTCGACGACACGGTAGCCACCGTTCTTGACAAGGAAGCGGACGGAGAAGGGGCCCTTGAGCGCCGCCTCACTCTTGAGCGACCAGGTGTTAGTCGACGACTCCTTGAGCGCCACCCAGTCCTTGCCGCCCTTCTCCTTGATCTCCACCTCAGAGATGGCGACGTTGGTGACGAGCTCTAGACTTTTTCCGCTAGAGCCCTCACCGACCTTGAAGGCGACCTCAGTGGCGCATGAGCCGACGACCAACAATGCCGCCACTGCCACGGCGAGCCGGAAGGAGGACAACGAGGCCATTGGTGAGCTAGCTAGTTTGTTGGTGTTGTCTTTCTTGTTTCTTGAAGGGTAGAGGGATGGATCGAGGTGTTTGGTGATCCATATTGCAGCTGGGTGTGTATTTATGGTGGCAGGGGGCAAAGAAAACCAGGCATGGATGCACGGTGCGGCATAGAGATCGTTGGCCG

Coding Potentia
Explanation CPC Score
noncoding -1.05419
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa06LNT0356200.1 6 27318545 A G
Osa06LNT0356200.1 6 27317160 T C
Osa06LNT0356200.1 6 27317172 A G
Osa06LNT0356200.1 6 27317564 A G
Osa06LNT0356200.1 6 27317770 T C
Osa06LNT0356200.1 6 27317890 A G
Osa06LNT0356200.1 6 27318445 T C
Osa06LNT0356200.1 6 27318569 T C
Osa06LNT0356200.1 6 27320774 A G
Osa06LNT0356200.1 6 27321081 T G
Osa06LNT0356200.1 6 27321223 A G
Osa06LNT0356200.1 6 27321225 A T
Osa06LNT0356200.1 6 27321365 A G
Osa06LNT0356200.1 6 27321606 T C
Osa06LNT0356200.1 6 27322199 C T
Osa06LNT0356200.1 6 27322500 C G
Osa06LNT0356200.1 6 27324090 T G
Osa06LNT0356200.1 6 27324142 T A
Osa06LNT0356200.1 6 27324198 T C
Osa06LNT0356200.1 6 27324453 A G
Osa06LNT0356200.1 6 27324528 T A
Osa06LNT0356200.1 6 27324681 A G
Osa06LNT0356200.1 6 27325720 C T
Osa06LNT0356200.1 6 27325819 T A
Osa06LNT0356200.1 6 27325905 T C
Osa06LNT0356200.1 6 27326279 A T
Osa06LNT0356200.1 6 27326571 T C
Osa06LNT0356200.1 6 27326907 A G
Osa06LNT0356200.1 6 27326955 A G
Osa06LNT0356200.1 6 27326969 A G
Osa06LNT0356200.1 6 27327213 T C
Osa06LNT0356200.1 6 27327717 A T
Osa06LNT0356200.1 6 27328024 T C
Osa06LNT0356200.1 6 27328039 A C
Osa06LNT0356200.1 6 27328227 A C
Osa06LNT0356200.1 6 27328329 C T
Osa06LNT0356200.1 6 27328490 T C
Osa06LNT0356200.1 6 27328769 G A
Osa06LNT0356200.1 6 27329167 T C
Osa06LNT0356200.1 6 27329292 A C
Osa06LNT0356200.1 6 27330359 A G
Osa06LNT0356200.1 6 27330474 T C
Osa06LNT0356200.1 6 27324558 A G
Osa06LNT0356200.1 6 27327844 T A
Osa06LNT0356200.1 6 27318618 C A
Osa06LNT0356200.1 6 27320025 A G
Osa06LNT0356200.1 6 27320086 A C
Osa06LNT0356200.1 6 27320214 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
Osa06LNT0356200.1 osa-miR5819 Cleavage 4.0 18.382 1 21
Osa06LNT0356200.1 osa-miR1430 Cleavage 5.0 12.756 1 21
Osa06LNT0356200.1 osa-miR1432-5p Cleavage 4.0 21.965 1 21
Osa06LNT0356200.1 osa-miR1862f Translation 3.5 14.29 1 20
Osa06LNT0356200.1 osa-miR1862g Translation 3.5 14.29 1 20
Osa06LNT0356200.1 osa-miR5498 Translation 5.0 17.424 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa06LNT0356200.1 6 amy6-1 Physiological trait Eating quality RM3 RM217
Osa06LNT0356200.1 6 asv6-1 Physiological trait Eating quality RM3 RM217
Osa06LNT0356200.1 6 qREP-6 Resistance or Tolerance Other soil stress tolerance nan nan
Osa06LNT0356200.1 6 tgw6.1 Physiological trait Source activity RG264 RM3
Osa06LNT0356200.1 6 nan Morphological trait Root RM4447 RM5509
Osa06LNT0356200.1 6 ph6 Morphological trait Dwarf RZ667 RG653
Osa06LNT0356200.1 6 qLDLJ-6-1,2,3 Physiological trait Source activity RM217 RM3
Osa06LNT0356200.1 6 ppl6.1 Resistance or Tolerance Drought tolerance RM3 CDO78
Osa06LNT0356200.1 6 nan Morphological trait Culm/leaf RG653 RZ140
Osa06LNT0356200.1 6 nan Resistance or Tolerance Blast resistance RG778 RZ682
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