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

>Osa02LNT0170100.2

GCAATTGAAGCATGGCTTGCGTGTGTAGAGCTTACAGGCTTCCACAGACGTGAAAATTGTGGTTCTCAAAACAGAAGGAATTGGTAAACAGACCAAGACGAAAAAAAAAAAAGCTCCGGATTTGTTGGAACAGTAGCTGGCCCGTCGCAGCACGAAGCCATGAACAAGTCTAGTGACCAAGATATGCCTGTTGCCAGCAAATTCTATTGCCCTTGTTCTGGATGAGGTGTGGTAGGAGATTCTGGCGCTACGGCGAATTGCATAGTCCTTCCATTTCGGTGGAGTATGATTGCCACTTCAGTTGGTAGAAGCATTGCTTCTTCCTGTCTTTGTCTTTGACGTTGCATGATACTAATAGCCCAAGCCATGATATAGCATGGCAGCAAAAATCCAGCAGCCCTCAAAAGAAACAACGAGAAAATAGCAGATGCGTCATCTTCATCATCACTACTAGTAATGGTTAGTGTATGCCTTAAGAGTAGAAGAGCCATTAGAATTAGAAATATGGAGCGGCAAAAGGCAGCAGCATTGTTGTTTGTTGCAGTATATTCATCATACTCATCTTCAAGTAAACGGTGTTGAGCGGCAGCCATAGCCAAGATTCTAGGATCATGTAAATCCAACCGATTGCCAGAGATAGACCAATCTCCACTACTGATCTCTATAGTAGTCTCATCATGATGTACCTGGGGTGGGGCAGTATAGCCAGGCTTGTATGACACGTGGCAGATTTCACAGATTATGTCTCCTTTCTCATTGCACCATCTTTGCACACATTCTCTATGAGCGTACTTGAGGCTACCGCTACAAGCGCAGGGGCTCTCGAGGTTCTTGGCGAGGTCCTCCTCCTGGCAAATGCGGCATTCCACCATCCCAATCAGCGCCCCCGTTTCCTCCTCGCCGGCGCCCCGGGACGCCATGAGCCCCCCAACATCCACCGCAACATGATCCCCCATTCCAGCAAATCACCCAAAAAAGTTTTAAAGAAAAAATCTCCACGCTCAGCAGCTCTCACGACCGATGGGGCTAGGGGCTAAAGCCCTAGAAATCCCGTGGCGAGATCGAAGAAGCGGGATTCGGGCCGAATCGAAGCTCCCCCCGACTCGCGGGGGATCACGACGAGGCTCGGATTACCCCCCCACGCGACCGGAAGCCGAAATGGGGGAGAGGAAAGGGAGGGGGATTTTACCTCGGCGGAATGAGCTGGGAAGCACTCCTCCTCGAAATATCTCCACCTTCCTTTCTTTTCTTTTCTTTTCTTTCTTCTTCTTCTTCCTTTTTTTTTCTCTCCTCTTCGCGTTTGTCTCGCGAGGAAAACGCCACTCGTCGGTGCTTTTTATCCCGCGCCGCGTGATGGGCGTGTGACGGACACGGACGGCTCGCCGTCACGACGCCGTCCGCTC

Coding Potentia
Explanation CPC Score
noncoding -1.09795
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa02LNT0170100.2 2 22163508 A T
Osa02LNT0170100.2 2 22164470 A G
Osa02LNT0170100.2 2 22164896 C T
Osa02LNT0170100.2 2 22165549 T C
Osa02LNT0170100.2 2 22165681 A G
Osa02LNT0170100.2 2 22166407 A C
Osa02LNT0170100.2 2 22166543 A C
Osa02LNT0170100.2 2 22167115 A G
Osa02LNT0170100.2 2 22167245 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
Osa02LNT0170100.2 osa-miR5526 Translation 5.0 17.716 1 21
Osa02LNT0170100.2 osa-miR1861o Cleavage 4.5 15.179 1 22
Osa02LNT0170100.2 osa-miR1861a Cleavage 4.5 15.179 1 22
Osa02LNT0170100.2 osa-miR1861d Cleavage 5.0 15.179 1 22
Osa02LNT0170100.2 osa-miR1882a Cleavage 5.0 18.143 1 24
Osa02LNT0170100.2 osa-miR1882b Cleavage 5.0 18.143 1 24
Osa02LNT0170100.2 osa-miR1882c Cleavage 5.0 18.143 1 24
Osa02LNT0170100.2 osa-miR1882d Cleavage 5.0 18.143 1 24
Osa02LNT0170100.2 osa-miR1882e-5p Cleavage 5.0 18.143 1 24
Osa02LNT0170100.2 osa-miR1882f Cleavage 5.0 18.143 1 24
Osa02LNT0170100.2 osa-miR1882g Cleavage 5.0 18.143 1 24
Osa02LNT0170100.2 osa-miR1882h Cleavage 5.0 18.143 1 24
Osa02LNT0170100.2 osa-miR2919 Cleavage 4.0 4.877 1 19
Osa02LNT0170100.2 osa-miR2919 Cleavage 4.0 10.84 1 19
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa02LNT0170100.2 2 nan Resistance or Tolerance Insect resistance RG157 RZ318
Osa02LNT0170100.2 2 yld2.1 Morphological trait Seed RM262 RM263
Osa02LNT0170100.2 2 qSS-2 Physiological trait Sterility RM301 RM263
Osa02LNT0170100.2 2 qCSH2 Resistance or Tolerance Cold tolerance RM262 RM263
Osa02LNT0170100.2 2 nan Resistance or Tolerance Drought tolerance RG157 RZ318
Osa02LNT0170100.2 2 qRTT2-1 Resistance or Tolerance Drought tolerance RG157 RZ318
Osa02LNT0170100.2 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