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

>Osa11LNT0103200.1

CAATCACATGAAAATTAAAATTACTCAGCGAGACAGTTAAGTACAGTCAACATACAGATGCAACAGTTTGCTTCTATTTGGTCTTTATCCCATCAGTACCTTTAGAACCACCATCATACGCAGAAAGGAAGAACGAACTCTGATTCTTCTGCAGAAACTTGAGAATGTCCAGCAATTTCTGCTGTAGTTTGTTGAGTGCATCTTCTTCCATGTTGACAGACGCAAGTAGCTCCGGCAATTTCACAAAAAGGCGCAGTAGATGCTCAGCTCCATATATAGTTGAGGGCGAAACATCGCCTTTAACCTCTTCAGAGTACTGCTGTCGCTCTTTCTTATACAAAAGCATTGCAGGCAATGCTTTATCAAAGTAGCATCGCAATCCTTTCAAAATCTCAGCGTAAGAGTCATTTATCTTGTTATCCTTCTTTGTCCGGTGCTCCAAGTACTTCTTTAGAATATCATCGACCGTGGGGGACCGAGGTAGCTTCACAAGCTTACCCAGCTGCGTGACAAACTCCCAATCATCAACAAGTTGCTTTTTTAGCGTTGAAGGAAAATGTGACATGAAGAGACTCTCAGATGATTTTCTTTCTTTCTCCTCAGTCCCACCAGGCTGACTTTTGCGTTTCTTCCCCTTGATAATAATCTTGGTGTCTTCTTTATCAGTTTTTGCATCTGCATTAGAGCCTTTTGGCTTATGCTGCGCTGACCGTCCAGATTTTACGCTTTTGTCAACTACTTGGCTCTTTTCAAGCTCTTGTTGTTTGCGGATATTTTCGTCGGTCAATTTCAGTAAGCGATCATTTGTGACCCATTCATCCCAGCTCTTATTCCAACCAAGATAATGGACATGATACCGCCACTCATCCTCCTTGTTTTCGGACTTTTGAACCTTGGCCTCGTAGAGGAGCGGGCCGTGGTAGGCGAGCACTCTCTCGCCCTCCTTGAACGACGGCTCCTTGGCAGCGGCGGATTCCGATCCAGCTTGGGACATTGGTGGGGGTACTTTGGGGGAACAAACAAACTGTTGCTTGTATTGAGGTTTAGGGTTCTGAAATTCGGAGAAGAGCTCCTTCTTCTTCCAGATCAGGATCTCCTCCCCTCTCCTGCTCTGCTCGCCAGGAACGACGAGGAGACGGGAGATTTCTTTCTTTTACGCACGAGCAC

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.923592
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa11LNT0103200.1 11 20099122 T A
Osa11LNT0103200.1 11 20099720 T A
Osa11LNT0103200.1 11 20099736 T C
Osa11LNT0103200.1 11 20099747 T G
Osa11LNT0103200.1 11 20101005 C T
Osa11LNT0103200.1 11 20101208 T C
Osa11LNT0103200.1 11 20101315 T G
Osa11LNT0103200.1 11 20101511 C A
Osa11LNT0103200.1 11 20101640 T C
Osa11LNT0103200.1 11 20101765 T C
Osa11LNT0103200.1 11 20101804 C G
Osa11LNT0103200.1 11 20101849 C A
Osa11LNT0103200.1 11 20102479 A C
Osa11LNT0103200.1 11 20103179 T C
Osa11LNT0103200.1 11 20103717 C T
Osa11LNT0103200.1 11 20103901 T G
Osa11LNT0103200.1 11 20104051 C T
Osa11LNT0103200.1 11 20104068 A C
Osa11LNT0103200.1 11 20104395 C T
Osa11LNT0103200.1 11 20105143 C T
Osa11LNT0103200.1 11 20105207 T G
Osa11LNT0103200.1 11 20105648 A T
Osa11LNT0103200.1 11 20105923 T G
Osa11LNT0103200.1 11 20106297 G T
Osa11LNT0103200.1 11 20106343 A G
Osa11LNT0103200.1 11 20106554 G A
Osa11LNT0103200.1 11 20106652 T C
Osa11LNT0103200.1 11 20106782 T G
Osa11LNT0103200.1 11 20105436 A G
Osa11LNT0103200.1 11 20104850 A G
Osa11LNT0103200.1 11 20105424 T A
Osa11LNT0103200.1 11 20099161 A G
Osa11LNT0103200.1 11 20099455 C T
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa11LNT0103200.1 osa-miR5534a Translation 5.0 15.302 1 21
Osa11LNT0103200.1 osa-miR5834 Cleavage 4.0 17.269 1 21
Osa11LNT0103200.1 osa-miR160a-3p Cleavage 4.5 13.969 1 21
Osa11LNT0103200.1 osa-miR160b-3p Cleavage 4.5 13.969 1 21
Osa11LNT0103200.1 osa-miR160d-3p Cleavage 5.0 13.969 1 21
Osa11LNT0103200.1 osa-miR530-3p Translation 5.0 17.227 1 21
Osa11LNT0103200.1 osa-miR816 Cleavage 4.5 12.916 1 20
Osa11LNT0103200.1 osa-miR395x Cleavage 5.0 11.71 1 21
Osa11LNT0103200.1 osa-miR5339 Cleavage 5.0 17.74 1 21
Osa11LNT0103200.1 osa-miR5515 Translation 4.5 12.617 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa11LNT0103200.1 11 qBFR11 Resistance or Tolerance Blast resistance RM209 RM5349
Osa11LNT0103200.1 11 qPH-11-1 Morphological trait Dwarf RM229 RM209
Osa11LNT0103200.1 11 elr11-1 Physiological trait Eating quality RM1812 RM209
Osa11LNT0103200.1 11 qDLR11 Resistance or Tolerance Other soil stress tolerance RM2596 RM286
Osa11LNT0103200.1 11 gw11.1 Resistance or Tolerance Drought tolerance RZ537 RZ900
Osa11LNT0103200.1 11 gpl11.1 Resistance or Tolerance Drought tolerance RZ537 RZ900
Osa11LNT0103200.1 11 yld11.1 Resistance or Tolerance Drought tolerance RZ537 RZ900
Osa11LNT0103200.1 11 nan Morphological trait Seed RM332 RM229
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