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

>Osa11LNT0106300.1

CATTAAGAGATATATAGTTCATCATCCCGTTGGTATACAAAGATGCTTAACAAGCATTGGAAAAAAAAAGTACTCTCAAACTAATATTAAAGCTGGGTTGGTGACCACTCCAAGATCTCAAAATATAACCAAAGCTGGTGCATGGTTATCAAATCCAAACTCTGAAAATACTTTGGGGGTCACACCAAGACCCAAGCGAGGGCCAAAAAAAAAGAAACTACAGAAGAAAGGGAAAAATAAAGGTGATTTCCACGGCTCCCATGATAAATGTCGCAAGTTCAGTAGCAGTATTGTTACAATGTTACTGATTGTTTTGCTCACATGCTGGGGCCTTTAGAACATTTCAGACAGTTAGCCCTCCATAACAACATCATCGTCCTTAGATGTTTCACCTCCAGTTAGTTCTGATGTCCACAATGCCAGGTTCTCCTTCAGGAGCTGCATCATAAGCATGCTGTCCTTGTAACCCTCCACACCAGCAGAGTTAATCTCAGCAGTAGCCTCATCAAGTGCTTGTTTTGCCACTTGGCTAGCTCTCTCAGGAGAGTTCATTATCTCAAGAAGACTGAAAAGTTGAGCGCAAGGCCAAGCCTGAATTGATGGGCAGGAGAAAGCTCACTGGAGGCAACAACCATGGCGTGCTGATAGGCCATAAGGGACTGATCAGTAGCAGCCTTCTTTTCAGTTCCAGTGCTAAATTCAGCCAAGTAACGGTAGTAGTCACCCTTCATCTTATAAAAGAACACGACATTTTCACCCGAATTGGCCAATGGAAGGCAATGAATAGCAATAATTGATAATACTTCATTGCAAACTGCCCTTAGTTCATCCTCTACTTTCTTTTTGTAGCCATTTATTGTTACACCTGGTTGGTCACCAGCTGTCACCTTCTGCTCAAGTGATTCAAGGATTCTCCATGATGCTCTCCTGGCACCAATAGTTTTCTTAAAACCAACTGAAAATAAAAGCCTCTCTTCAGCACTCATATCCACATCCATCCTAGCAAGTGTCTTCATAAATTCCACCATATCGTCGTATCTCTCCGCCTGCTCGGCGAGCTTGGCCAGTCGCACCACCTTCTCCCTCTCCTTCATCTTCTTCACTTCCCAGCAATGGATTTGTCTGCAGCAGCAGCGCTTGATGGCTTCTCCTCTTCTTCCCCTCTTCACCTTCCTAAAATGGAAGGTGTGTGAGGTGTACTTCCCCTCCCCCACTGTTTCTTTTCTGAAATGTGATTTTTTTTTCTCCA

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.572712
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa11LNT0106300.1 11 23557512 T G
Osa11LNT0106300.1 11 23553289 T C
Osa11LNT0106300.1 11 23553389 T C
Osa11LNT0106300.1 11 23553416 G A
Osa11LNT0106300.1 11 23553426 T C
Osa11LNT0106300.1 11 23553440 A G
Osa11LNT0106300.1 11 23553594 T C
Osa11LNT0106300.1 11 23553706 C A
Osa11LNT0106300.1 11 23553747 G A
Osa11LNT0106300.1 11 23553993 A G
Osa11LNT0106300.1 11 23554349 A G
Osa11LNT0106300.1 11 23554614 C T
Osa11LNT0106300.1 11 23554620 G T
Osa11LNT0106300.1 11 23554673 C G
Osa11LNT0106300.1 11 23554860 A G
Osa11LNT0106300.1 11 23554891 T C
Osa11LNT0106300.1 11 23555148 T C
Osa11LNT0106300.1 11 23555149 A G
Osa11LNT0106300.1 11 23555182 T G
Osa11LNT0106300.1 11 23555558 A C
Osa11LNT0106300.1 11 23555590 T C
Osa11LNT0106300.1 11 23556101 G A
Osa11LNT0106300.1 11 23556270 T C
Osa11LNT0106300.1 11 23556354 C G
Osa11LNT0106300.1 11 23556480 T C
Osa11LNT0106300.1 11 23556498 T C
Osa11LNT0106300.1 11 23557517 A C
Osa11LNT0106300.1 11 23557995 T G
Osa11LNT0106300.1 11 23558036 C T
Osa11LNT0106300.1 11 23558125 T C
Osa11LNT0106300.1 11 23558466 C T
Osa11LNT0106300.1 11 23558562 T 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
Osa11LNT0106300.1 osa-miR5797 Cleavage 4.5 4.7 1 21
Osa11LNT0106300.1 osa-miR1855 Cleavage 4.0 18.086 1 21
Osa11LNT0106300.1 osa-miR2866 Translation 5.0 16.207 1 20
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa11LNT0106300.1 11 Xa21 Resistance or Tolerance Bacterial blight resistance CDO534 RZ537
Osa11LNT0106300.1 11 yld11.1 Resistance or Tolerance Drought tolerance RZ537 RZ900
Osa11LNT0106300.1 11 gpl11.1 Resistance or Tolerance Drought tolerance RZ537 RZ900
Osa11LNT0106300.1 11 gw11.1 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