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

>Osa02LNT0169100.1

CATGAGTAAAGACATAATTTACAAAAATTTGTGAACTATATAGATCAAATATCAAGGTACTGAATGGCATTGTCCGCAAGGACCGCAACAATACAAAATATAATTATATATGATTTAATAACTAACCTCCATATAACAATTTTCTAATCACCGGCAAAATGTAGTTCGAGATCACCAGTTGCAACTTGCAATTAAAATTTCATAATAATAAACATATAAGTAGCAAAGTGTTAGGATCTAAATTAAGCTCCATCTCTCCTGAACAAAGCAGAGGTTCTAGCTTAGACTCTGGACCTCATCTCCTTCGGCCGGCCGACAGGAGGCCTCCTCGGTGCGTCAAACTCTCCCTTCACGTCCTCCTCGTCGCCGCCGCCATCGCCATCACCGTTCTTCTTCTTCTCCGGTCGGACGGCGGCCGAGGACGTCCCCTTCTGTGCCGATATCGCCGACGCCAGCGCCACCGGCATGAGGCAGAGCCCCTTGCTCTGCAGGTACTGCATCGCCGTCGTCATGTTGTCCTCCATCAGCTTCACCACCTCCTGCTCGAACATGGCGCCGCCGTCCAGGAGCTCCGGCTGATCGCCGGGGAGCCCTCCTGTTACTGCTCCTGCTCCTGCCTGCCTTTCTCCTGATGATGATCTTGGGGACAGGAGAAACCCGGGGCTCTCGGTTTGTGTTTCTGTCAGAAGAGGGACAACGGCTTCGGCCGCTCCAAGCCTGCTCATGCTAAGGACCTTGACTTGTAATTGGAGAAATTTCACATAGTCGATGATCTCATCGAGCATGGATGCCTTGTTAGTCTTGTTTGAGTTTGGGACAAGCTCCTGTAAATCCTTCATCCTGTCAGAGATCTTCTCCCTCCGGAGCCTCTCTGCGATGCTGTGGGGATCGGTGGCCTGGCCTCGGCGAGCCCTGACACGAGGCTTGGGTGCTCCATTCCCAGCACTACCACTCCCATTGCCCTTTGGTAGCACCTCAGATAGGTTCACAAATGGAGCGGCGCCGCCATTTTTGCCACCGCAAGCTTCAGCAGGCTGTATGCACAACAGTTCTTGCTCAGGTTTTCAGGACATCAGATATTGCAGAGGAATTCGACTGATTTACTAAAAGATTGGCAAATCAAGATGGACAAGGAAGGACAAGAACCTGTCTATGGCTCTGTGTTGCATTGAATGATGCGAGTGGTCCAGAAATCAGCGAGGAGAGATTGAGGTGGTGCAGGCCACTGCTGAATTCCTTCTGGTCGATCTGCAGGCTGTCAATGCTGGGGGTAACGTGCTGCTGTCCAGAAGCAAAAGACATCAATTTTCCAGTGTTGAAATCGATGTCATCATTCAGATGATGCGGCTGCGACGAAGGCACAACGCCCAGCTGCTGCTGCTGCTGATGATGATGATACTTGCTCACGGTCGCCTCCTGCAGGAGATCGCCATTGAAGAGGCTGCCAAAGCCGAAGCTCTGCGGCGTTTCTTCTCCCGCGGCCATGGACGGGAGTACACCTCCCGCGGCGTAGG

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.400159
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa02LNT0169100.1 2 21437102 C G
Osa02LNT0169100.1 2 21438106 T G
Osa02LNT0169100.1 2 21438659 A G
Osa02LNT0169100.1 2 21438850 T C
Osa02LNT0169100.1 2 21438865 A G
Osa02LNT0169100.1 2 21436294 A 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
Osa02LNT0169100.1 osa-miR6246 Cleavage 4.0 22.54 1 23
Osa02LNT0169100.1 osa-miR6250 Translation 5.0 22.314 1 22
Osa02LNT0169100.1 osa-miR426 Translation 5.0 9.469 1 21
Osa02LNT0169100.1 osa-miR395o Cleavage 4.5 15.383 1 21
Osa02LNT0169100.1 osa-miR1427 Translation 3.5 21.683 1 21
Osa02LNT0169100.1 osa-miR2865 Translation 3.5 22.825 1 22
Osa02LNT0169100.1 osa-miR3980a-3p Cleavage 5.0 23.458 1 21
Osa02LNT0169100.1 osa-miR3980b-3p Cleavage 5.0 23.458 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa02LNT0169100.1 2 qRTH-2 Morphological trait Root RM262 RM341
Osa02LNT0169100.1 2 qSTA-2 Morphological trait Root RM262 RM341
Osa02LNT0169100.1 2 qRTT2-1 Resistance or Tolerance Drought tolerance RG157 RZ318
Osa02LNT0169100.1 2 nan Resistance or Tolerance Drought tolerance RG157 RZ318
Osa02LNT0169100.1 2 nan Resistance or Tolerance Insect resistance RG157 RZ318
Osa02LNT0169100.1 2 qPH-2 Morphological trait Dwarf RG324 RG83
Osa02LNT0169100.1 2 qSS-2 Physiological trait Sterility RM301 RM263
Osa02LNT0169100.1 2 np2.2 Morphological trait Culm/leaf RM324 RM262
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