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

>Osa11LNT0105000.1

AAAAATCGAATTTGAATTGTGATGTTTTGAATTGTGAATTTAAATATGGTTGGATTATTATGGTTTCATACTAGGAGTAGCGTAGAGTATAGAACTATATATTAGTACTTTAAAGTATATGTTAAAATAGAAGATGAAATGAAATAAGGGGTGAGAAAAGGGACTGCTGCTGGAGTTAAAGGTATTTTTTAGGTACTCAGGAAATGGGGGAAGCCCCTATTGTACTTTTAGGGACTGTAAAATAGGAGCTATTACTGAAGATGCTCTAAGAATGCAACACCTAGTGTATTCGTCAGCTCACGCGTCAAACAGGATTACTTGTGGGGAGTCATCTTTCTTGGTCTCTGGTGCTTCTGATAGAATATTGATGAGTTTCCCAAGCTTTTGACAGGGGCTTCTTATCTTTCTTCTCTTGTACAGTGCTTGCTGCCACCATCAAGTTCATCATTATCAGGACCAGCAAGATCAACAAAGGTAATTCTGCTAGTCCGTGAGCTGTTGAAGCCATTTGATGAGCAACCCTTGCTCCATTCTTCAATGACACAAGTGAATATTACATGAGAACAACCTTTTCAAGTTCATACTGGTGGTGCCAACTTTTCTGTTTGAAAGGCCCTGTAAAGAAAAACAAGCTTAGACAAGCTATCAATAACGCTGGAGCAATGGTAGACTTCAATTCAGATTTTAATCTCTTAGAGGAGAAGGCAGTGACTCAGTTATTAGGACAACATGAAACAACTAGTATTGAGAGAGCATGATACAAGAACTAATATATGTGATCTTAACAAAAATACAGCTTGTTATCAAGACAAAGGTCTTTGTGACTACAGGGTAGCTCAAGCAGAGGTCCTGGTTGTGATCCTCATCCATGCAGAGGTGAAAATGAAAAGCAAAGAAACCCTAGTTTTAAAAGCAAAATAGAAAGGACAATTTCTTTCTGCTGCTCTTGTAGATCAAAATTATAGCTTCATCAAGATTTCATTGACGTCCTCAACCGTTGACACATACTCATCGATCAAGTTCTCAACATGTACACCATTGCAAGCATTCTCTCTTATCTATAATAATGGAGTTGGAAAAGTTTACTCAGAATTGGTAGCTTGTCTGCTTGCTTCTCTGGTGAGCTTTCTTGCCTCTGGGAGAGTGGGAGGCCGGAGGCCCTGTCTGTCGTCGAGGAAGCCATCGATGGCGAACAAGGGAGGGGTTCGTTCCGTCGCCGTGATCGGAACCTCTCAATCCTCATATATACTCGTCTACCGAGATTTGAGGGGAGAGGCGGCGCGGCGTCGTTGACTCGAATCTCGTCGCCGACGTACGCCGAGCTGCTCCCCCATCCCCCCGCGCCGCCACCGAGCCCCTCGCTGGCCGCGGCCTCGCCCCATACAGCGACGACGAGGAGGACACGGCGGCGAAGAGGGCCTCGCCGGCGGCGGATGGGAGTGAGGGAGGAGAGCGTCACGCCGGCGAGGTAGGAGGAGGTAAGGGATAGAGATATTTTGCATAAACCCCCCTCAAGAAATGGTATATTACAAAAACGTTCAAC

Coding Potentia
Explanation CPC Score
noncoding -1.14101
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa11LNT0105000.1 11 22201110 T A
Osa11LNT0105000.1 11 22201205 T G
Osa11LNT0105000.1 11 22202244 G A
Osa11LNT0105000.1 11 22202286 C A
Osa11LNT0105000.1 11 22202366 C T
Osa11LNT0105000.1 11 22202378 C T
Osa11LNT0105000.1 11 22202380 T G
Osa11LNT0105000.1 11 22202841 T C
Osa11LNT0105000.1 11 22202847 T C
Osa11LNT0105000.1 11 22202854 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
Osa11LNT0105000.1 osa-miR5535 Cleavage 4.5 16.108 1 22
Osa11LNT0105000.1 osa-miR1440b Translation 4.5 16.108 1 21
Osa11LNT0105000.1 osa-miR319a-3p Cleavage 5.0 19.682 1 21
Osa11LNT0105000.1 osa-miR172a Cleavage 4.0 10.182 1 21
Osa11LNT0105000.1 osa-miR172b Cleavage 3.0 10.182 1 21
Osa11LNT0105000.1 osa-miR172c Cleavage 4.0 10.182 1 21
Osa11LNT0105000.1 osa-miR172d-3p Cleavage 4.0 10.182 1 21
Osa11LNT0105000.1 osa-miR1429-5p Cleavage 4.5 14.176 1 21
Osa11LNT0105000.1 osa-miR1432-5p Cleavage 3.5 19.639 1 21
Osa11LNT0105000.1 osa-miR1432-5p Translation 5.0 15.361 1 21
Osa11LNT0105000.1 osa-miR1855 Translation 5.0 17.404 1 21
Osa11LNT0105000.1 osa-miR5083 Translation 5.0 17.814 1 20
Osa11LNT0105000.1 osa-miR5489 Translation 5.0 12.993 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa11LNT0105000.1 11 Xa21 Resistance or Tolerance Bacterial blight resistance CDO534 RZ537
Osa11LNT0105000.1 11 gw11.1 Resistance or Tolerance Drought tolerance RZ537 RZ900
Osa11LNT0105000.1 11 chs Others Others nan nan
Osa11LNT0105000.1 11 gpl11.1 Resistance or Tolerance Drought tolerance RZ537 RZ900
Osa11LNT0105000.1 11 yld11.1 Resistance or Tolerance Drought tolerance RZ537 RZ900
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