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

>Osa02LNT0171400.1

CAATGCAGGGTAACTCGTCTGGTAAGTAAATGATACTGTACAGAACAAGATAAAAAAAAATTCTGGATGTCATCCAGTTCACAATCTACAAGAGTTTCTGAGTTCATATATCAACCATGGAAGTAATGGGTAAAACTCAGGAGGTAAAAGCACACACACTGCTGAGCTCCTCTAAAAAAACAAGAACGCAGCGCCCAAGCATGCGCTATGCTGTCAGGCCTTCTTCCAATGTTTGGCTACACCAGTACAAAATCATGAACTCACCCAAATCGCCAAGCGATCGCTCAACTAAGTCAGCCAAATTGTATCAGGTACAACCAATATCTCGCATGTTGTTCTCCAAAGGGGCATCATCCACGATCCCCATGCGCATCAGGTTATGCAAGCTGCAAGTGCCTAGCCACTCTCTCTCATGCATCGCCCTGGAAGAAGATAACTGTACTGATCTACTTTCTCTAGCAAATAAGCAGGAAGATGAACGGCAGAAAATGTGCTTGGGATTGGACCCAGCTTGGCAATGATTTCTTGGAATGTGTATTCTTCAGGAAGCATGTCGAAAAGATCGGCTCCTCGGCATATCACATGCTGAATTCTTTTGGGGTTCAGGAAGTACTTAAATCTAATCCGATCAACATGGCTATAAGCTTGCATTTTGAAGACAAAATCACTAATGTAGCGAAAACAAAAGCTGCAGTGCCATCCTGAATCAGCCAGAAGGTCATCTGTTTGCCGGAAATGTGCATACCTCGTCTTTCCAGCCCGGTATCTGTGAATTGAAGCCCTCCAACTTTTGTCATCAAGGAAAAATTCAAATGAGTACAGATAGTTCCTGAGCTGGAGATGGAGTACTTCAGGTATGTCATCACACCATCTCAAGAGGTTGATCGTATGCCCACTTGGAATCTCATCAACATCAGACATGATCAACAGGTCATCATCTGTGATCCCGGCAATTTTAATAAGCTGGTCAAGAGCAACCCTCTGATATGACTCCTCGACAAATGGGTTCTCCCCCTTCACAAACCGACCACCTATCATACCATAGGTCAACCGTGATTCAGCAAATTCAAAACGTTGACGGTTTTCCTTGAAGTGGAGATCCTTTTTAAGGCCAGTGAAGGTTGAGTTGGACTCAAGCAACACAAACTCTGACACATAAGGGCTAAGCTCATGCCAACGGATATCAAGAATATCAAGCTCGTTGCTGAAAAGCACAGCATCAAAAACACGCCGCGGCGTTTCCCTGACTTTCCATCCATGTAACTTGCATAAGTTGGCCATTGAGACATTTTCGTTGTAGTAGTGAGGAAGTACTTTGAAGGGCTTTGGGGGCTTTTCCCAGATTGGTCTGAGGAAGTAAGTGACTTTCTGGCCATGAAGGTATATAACAAAGATCAGAATTGGCAGACCAATCAAGAGGATCAAAAGTGCTCTTAAATCAAACCCCCGAAGTGCGCACTTCAGCCTTGACATACTAAAAACTGCCTTTGAACCATGCTCGCTGTCGCAGACGTCCTCGCAGATGCCGTCCGTCTTCTTGCAGTTGTAGTACCCGCCGGCCTCCATCCCCGCGGCGGCGGCGGCGGCGGCGAAGAAGACGAGCGAGGAGGAGGAGGATCACGGGGGGAGCCTCTCGACGGGGGGGAACGGGAAACGGCTGACGCGCTGCTCCCGCCTCTCTCCAGCCCACGTCTCCCAATGGCAGGCGGCGGCGGGAGACCTCGCCGGCGGCGAGGTGGGGGGGAGGCGGTGCGCGTGCGCTCCCTGGTCGTCTTCTCCTGGTCTTTTTGCGTTCTCCCCCTCGGACTAAGCCCGTAATTACCGCGGCCTCCTCGCCGCGTGCGGCAGTCGGGCCGTCGGGGACGTGTTCCGAAATACGGGGAGTGTGCGGGGGGTGGGAGCGGAAGAGTGTTGTTGGGGTTGGGTTCGGTGC

Coding Potentia
Explanation CPC Score
noncoding -1.02202
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa02LNT0171400.1 2 23083451 T A
Osa02LNT0171400.1 2 23083620 A G
Osa02LNT0171400.1 2 23083995 T C
Osa02LNT0171400.1 2 23084478 C A
Osa02LNT0171400.1 2 23085000 A G
Osa02LNT0171400.1 2 23085745 T C
Osa02LNT0171400.1 2 23086389 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
Osa02LNT0171400.1 osa-miR6251 Translation 5.0 14.034 1 21
Osa02LNT0171400.1 osa-miR818f Cleavage 5.0 18.937 1 21
Osa02LNT0171400.1 osa-miR818f Translation 5.0 16.742 1 21
Osa02LNT0171400.1 osa-miR1855 Translation 5.0 11.343 1 21
Osa02LNT0171400.1 osa-miR5147 Cleavage 5.0 13.061 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa02LNT0171400.1 2 qPN2 Morphological trait Culm/leaf RZ961 RZ401
Osa02LNT0171400.1 2 nan Resistance or Tolerance Insect resistance RG157 RZ318
Osa02LNT0171400.1 2 yld2.1 Morphological trait Seed RM262 RM263
Osa02LNT0171400.1 2 qSS-2 Physiological trait Sterility RM301 RM263
Osa02LNT0171400.1 2 qCSH2 Resistance or Tolerance Cold tolerance RM262 RM263
Osa02LNT0171400.1 2 Tiller number Morphological trait Culm/leaf R26 C424
Osa02LNT0171400.1 2 nan Resistance or Tolerance Drought tolerance RG157 RZ318
Osa02LNT0171400.1 2 qRTT2-1 Resistance or Tolerance Drought tolerance RG157 RZ318
Osa02LNT0171400.1 2 qPH-2 Morphological trait Dwarf RG324 RG83
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