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

>Osa02LNT0168000.1

AGTCATGAGCCATGACAACTAGATAATGTGACATTTCTCTCCGACAAATATTTCTCTAGAGGAATTACTCAAGAAGTTCAGAAAGTACTGGAATCCATTCACATGCCCATCCTTTTACCTCAATTTATTTACGGAATAACGACTCAAAACATGGAAAGAGAAACACGCAAATCTTAGCACAGGCAGAACAACTCAAAACACTCGTCAGAGGAGGTCATCAGACCATCGCTCTCAGCTCCCGAGCAGAGACGTCAAGAAGGCCAGCCCTCCGATCAAGAGCATGATGTTGAGGAAGTAGTTGGACTGCAGAGGCTTGTCCGGGCTGCCTCCGAATCCCTCGTACTCCGCCCTGATCTTCTGCTTCATCGAGTCCGACAGCTCCTTCTTTCCGTAGGAGTATTTCGCAGCGACGAAGGGCTCTGGTTGCGGTGCTGCACCGTTGTTGTCATCCGCTGGCGATGATGCCACTGCTGCTCCTACCGTTACTGGTACTGGAGTTGGTTCAGCTTCCTTCTTCTCCTCGACTGGTGGAGGTGGTGGTGCTGCTGCTGGCGCTGGTGCTGGTTCAGGATCCTTCTCTTCGACGGCTGGTTCATCGTCCAGTGAAAATCCCTCAGGTGGATCGAACTTTGCACCAAGGTCGCTCAGTTTAGCATGAGCTTCAGCGTAGTCTTTAAAGAATGCCTCCTGATCCTCTGCATATTTTTCGGCATATACCTTGAAGGACGGATCCTCAAATAATGCAGCATCTGTGGGTAGCACTAGAAGATCCTGGTCCCTTTGCTCTTTTATGTCCTTGAAGTAACTGTTATCAAACTTCAACCATTCAACTGTCCATGATTGCCCTCCAGGTTCACCAGGCCCATCCTTAGTATATTTTGTTTCTGGCTTTCCCCAGCCACTCCTGTCAGGTCTTGATCTTCCAAGTGTGTGTGCTCCAGATAATGCAACAATTTCCTTGTCATCAAGGCCCATCCTGTAGAATACCTCCCTAAGATGATCAGCGGGCACACGTGGACCGGCATCAGGAAGCCTCCCCTCTGGTGGGCACTGCTCAGCTGCTGTGACATCAACTCGTCCATATTTCATTGGAATTTTCGGCCCACCAGCTTCCTCAATTGCTGTAGCACTTGCCAACTGGAACAAATCAGCATAAGTTATACCCGGGTATTTGTCCTTGATTGGTTGGATAAGCTTCAAAGCATTAATCAGACCAGCATTGGCTCCGTGGCTCAATTCGGCGTCAAATCTCAAGCTCCCGTCGGCTCCGCCCCTCTGCGGCCACTCCTCGATGTTCTTGTCGTACGTGCCAGAATCGTGCCACCCAAGACGGACCATGATGGGGTGGCAGTAGGTGGTCTTGAGGATCTCCCTGATGTCCTCCCGGGCGCTCTTGAGCTGCGCCGCGTCGGACGCCGCCACCGCCGGGAGGAGGGAGGCGGCGATGCGCTCCGCCATGGCGCGCGCGCTCGAGTCGAGTGAGTTTTT

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.838748
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa02LNT0168000.1 2 20869565 C T
Osa02LNT0168000.1 2 20869926 A G
Osa02LNT0168000.1 2 20870008 G A
Osa02LNT0168000.1 2 20870149 A G
Osa02LNT0168000.1 2 20870440 A G
Osa02LNT0168000.1 2 20872013 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
Osa02LNT0168000.1 osa-miR5525 Cleavage 4.0 12.648 1 22
Osa02LNT0168000.1 osa-miR5816 Cleavage 4.5 12.201 1 24
Osa02LNT0168000.1 osa-miR5830 Cleavage 4.0 16.125 1 24
Osa02LNT0168000.1 osa-miR319a-3p Translation 4.5 22.705 1 21
Osa02LNT0168000.1 osa-miR168b Translation 5.0 9.486 1 21
Osa02LNT0168000.1 osa-miR169i-5p.2 Cleavage 5.0 19.279 1 22
Osa02LNT0168000.1 osa-miR5148a Cleavage 5.0 13.778 1 24
Osa02LNT0168000.1 osa-miR5148b Cleavage 5.0 13.778 1 24
Osa02LNT0168000.1 osa-miR5148c Cleavage 5.0 13.778 1 24
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa02LNT0168000.1 2 qPH-2 Morphological trait Dwarf RG324 RG83
Osa02LNT0168000.1 2 nan Resistance or Tolerance Insect resistance RG157 RZ318
Osa02LNT0168000.1 2 np2.2 Morphological trait Culm/leaf RM324 RM262
Osa02LNT0168000.1 2 qSS-2 Physiological trait Sterility RM301 RM263
Osa02LNT0168000.1 2 qRTH-2 Morphological trait Root RM262 RM341
Osa02LNT0168000.1 2 qSTA-2 Morphological trait Root RM262 RM341
Osa02LNT0168000.1 2 qRTT2-1 Resistance or Tolerance Drought tolerance RG157 RZ318
Osa02LNT0168000.1 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