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

>Osa02LNT0170000.1

AACATGGAATATTAATTTTGATTAAAATAAAATAAGCCATTTATATTTGGGGCTGTCGCTGTTAACTTCACTCTCTTTTTTGTAATTCTGAAAGAGAGAAAAAAAAGTGATGCTGTTTGTGTACCTATCGGCATCATCACGGATTACACCGTATACTGAATTCTCATTCCAGATTCAGTTGGGCTTTCTTTTCATTTCAACGCCCAGAAAGCAAATCAAACTCTTTAGTAGAGTAATTTAAGTAAAACCTCTAATGTGAAACGGTACAGTACAGATTCCCGCAATTCAATATGGGCTCTGGACGCACCCGTTTGTGCTTCCGCATATGTACTTCGAGTGATTCTGTGATAGGATTTTGATTATCTGCATTTCCAGATCCTCATCCTTGTTCATCTTTCGGATAGTACTCCTTTCTTTGTCTGTTACAATAATGACTTCCTCTTTGTACGTTGCAAGCAAATTGGCCACAACGATGTTCATCTTGTACTTGTTCAGAGCCATATCTGCTTTCTGAATAAGGATGTCCGAATCCGTCTCCAACTTAAATGATATACAGAACGCCAAGGGGGCCCATTGGTTTCGCAACACTGAAAGCATTTTCGGAACTTGACTGAGCCTCATATCCAGAGGGCCTCCACCTGACTGAATCTTATGTTTGGCCATGCTATCCCAAGGGACATAGAAATCAGACACAGCCGCAGCAAGATAGAACATTCCGAGTGGCCCAGCCGAACTTATAGATGTAGCAACCATCTTCAATAGCTGAAGGTATTCAAATATTGTAGTGAATGGGAGTTTCAACAGATAGCCGCCTTCAATTGCCTTGCAATAATCTCCAATTGCTTTCTTGACCACTGGCGCGTGGCACTCCGCCACTTGAACCTTCGATTCTGCATCGACATCAAAGAATTTGAGGAATGAATCATCGGGGAGGAACCTACAATAAGGCTGGCAGCTTCCTCTGCACACATGTAGAAGCAGTAAAATGTAAAATACAGGTTATTTCACAGTGAGGGCATAGCCCCAATCTGTTTATTGAGAATTAACAATCTTTTCACCCTATGTAGAACAGAACAATTGACAAAACTGAAAGGGGGATAAAAACAGGTTCAGTTTATTTGTGGGAAATTTTCCTAATCGATTACCGTCGATGGAGGAAGATAACTGCATAGCCAGCCTTCAAAAAATACTCGGTGGAGGCGGCGCCGCGGTGGCCGGAGCTGAAGTTGTCGATGTACCGCACGCAGCGCTGCTCCAGCGGCACCGTCGTCCCGCCCGACGTCACGCACACGATCCGCCTGCCGCCGCCGCCCGCGCCCGCTGCGGAGGAGTTGCGGGCGATGAATTCCCCCAGCCTCGCGGCCACGGCGTCGGCGTCCCGCAGCGGCGGCGCCGCCGCGAAGAAGGACTCCGGGTTCTCCTCGGCGGCGACCATCGCCGATCGATCGATCGATGGATGGATGGATGCGAGTGATTGAGCAGAACGAAGGGGCGGGAAGCATTTAAAGGGGGTGGATGACGCGGCTGGCCTCGACGCCTCCAGCCTCAACCGCCAAGAACCTGGAGCCTCTCCGATCGGTCACTGCCGCCATTACGGCGCACGTCCTCGTCGCCATTAATCGCGGTTGGCGCTTGTCACTCACCACCGCCGTCCCTCCTCCTCTTCTAGTCTTCTTCCTCATCGATCGAGCTCAACTACTCCAATGCCTCCTCCATTAACTCCCCCA

Coding Potentia
Explanation CPC Score
noncoding -1.14784
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa02LNT0170000.1 2 22068881 A C
Osa02LNT0170000.1 2 22069303 A G
Osa02LNT0170000.1 2 22069305 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
Osa02LNT0170000.1 osa-miR5543 Translation 3.0 12.718 1 21
Osa02LNT0170000.1 osa-miR1861o Translation 5.0 16.718 1 22
Osa02LNT0170000.1 osa-miR167a-5p Cleavage 4.0 15.657 1 21
Osa02LNT0170000.1 osa-miR167b Cleavage 4.0 15.657 1 21
Osa02LNT0170000.1 osa-miR167c-5p Cleavage 4.0 15.657 1 21
Osa02LNT0170000.1 osa-miR396c-3p Cleavage 2.5 17.096 1 21
Osa02LNT0170000.1 osa-miR167d-5p Cleavage 4.0 15.657 1 21
Osa02LNT0170000.1 osa-miR167e-5p Cleavage 4.0 15.657 1 21
Osa02LNT0170000.1 osa-miR167f Cleavage 4.0 15.657 1 21
Osa02LNT0170000.1 osa-miR167g Cleavage 4.0 15.657 1 21
Osa02LNT0170000.1 osa-miR167h-5p Cleavage 4.0 15.657 1 21
Osa02LNT0170000.1 osa-miR167i-5p Cleavage 4.0 15.657 1 21
Osa02LNT0170000.1 osa-miR167j Cleavage 4.0 15.657 1 21
Osa02LNT0170000.1 osa-miR1861a Translation 5.0 16.718 1 22
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa02LNT0170000.1 2 qPH-2 Morphological trait Dwarf RG324 RG83
Osa02LNT0170000.1 2 nan Resistance or Tolerance Insect resistance RG157 RZ318
Osa02LNT0170000.1 2 yld2.1 Morphological trait Seed RM262 RM263
Osa02LNT0170000.1 2 qSS-2 Physiological trait Sterility RM301 RM263
Osa02LNT0170000.1 2 qCSH2 Resistance or Tolerance Cold tolerance RM262 RM263
Osa02LNT0170000.1 2 qRTT2-1 Resistance or Tolerance Drought tolerance RG157 RZ318
Osa02LNT0170000.1 2 nan Resistance or Tolerance Drought tolerance RG157 RZ318
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