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

>Osa02LNT0168800.1

GAAAAACATACCATCACATTTTATGGTGCAGTTGTAGTGCCAACGCTGACCTATGACAGCAACAAAAAAAAAACAAAAAAAAAAAGTTTCCAAGCATTTATGTCTTCTCACATCGCAACCGCAAAATGCTCTATACAATCTCGACAACAAACTCCTCTCTCTGACATAGTGAACTAACACAGTGAAGGCTCATTTGGCTCCATTCTACTGTGTCAACAGCTAAACCATTTGGGTTCTGGGTAAAATTCCATGAGGTTTCTCAAGCTCCAGTTATGAATGATGGGAAGTAATGCTCCAAAACCGCCAGGAAATCTCTCCTGTTGTTTTCCATGTTGACCGGAACGCCGAGCCGGCCAACCGCCTCGACCAGTTCCCCCCTCAGTCTCTGCGGCAGCAGCTGCCCTCTTGCACTCGCGCATGCCCGGTACAGCGGCAGGTACGCGATAGCGAGTGCCATGGGCTCCGGGAGGTCATGCAGGCGGATCGGAGACGCCCCTCTCCTCAGAACCCTGGTGATGTTCACAAAATGATCTTCCCCAGCCTCTACTCCTTCAGCAAATGCGGCCTGAGACCACTGCTCTTTCAGAAAATCAACCAGGTCTTGGGGAATATCCATCGTACTCGTGGTCGCAATGCTGTCTGCAACTGCATACGTAGCGGCGGCATCGTTGAGGAAGTTTGAACGGAGAAGGAAGGAAACACCTTCAAAAGACCCACTACCCTGTCCCCTCGCAGCTTTGAGAATCTGTGGGCTGAGGGCTTCGAGGACATGCCGGGGGATATGCGCAAGCAGGTAGGTGGCAACTGCGAAGTGGCCGCAAGAGGCAGCGGTTGTTACAGCAAGGCACATCTCAATGTCTGAAACATGCCGGTTGACAAACCACTGGACAACCTGCAAGCAACCACGCTCAGAAGCTTTTACTAAGGGACAAAGGAAAGATGTGGCATGCCCTTCATCCACCAAGCATGCCATCGTTTCAAATTTGCAGTAGTGAGAAGCATAGACTAGAGCAAGATCGACATCGACAGCCAAGCTGTTCTGATGAGCAATCTTTAGCAGAATGCGTACAAGCTCAGTACTTCCAAAACGTGAAGCTTCTAGAAAACACTGATTTACATTCTCAGCACCTCCTTCCACCAGCAATGACAAAAGCCCTTGTATGGCAACTGCTGAACTCCCAGAAGACCATCCAGGTTCAAATAAAGTTGAGAATAGTGTAAGTGGGAAGCAGGCCGCATCGAATGCCTCAGTGAAAATCTTGCCACTGAGATTGTCACCAGCTATGTCCAAGAAGGCTTTAAACGCTGATAGATGGAACTGTACCTCTTGGTGAGTGCTGCAGTTTGCTTTGTAACACTCTGTATCTTCAGAACAACGATGCAGATGAATGCACTGCAATGCCCATTCTATAAACTTCTGCACTTTGGCACCTGCCTCAATTTGTAAACGTTCACCACCAGGACAATCTTGTAGACGATCATGTAATCTCTGAGCTATGATTTCCTTGCTATCACCTAAAGTAAGCGCCTTGCTTTGGCAGGCAACGACACAAGATGCGAGCAATGAAGTCCTGAGGATTGCCCTGGCAAAATCCTTCGCCCCTGATTCTACAATCTTACCTATCAGATGGTTGAGACCTTGAAGATCCTGCTCCGTCCGCAAGAACCAAATGGCATCAAGAGCAACGGACAAACCATAATCCAGCATTAACTGATGGTCTGCTAGAGCAACAAGGCTTTCAGCGAGACCCCACTGCCGCGAGAACAAAACCAACTGCAGCGAATGCCCAAAATCAATCTGTCCATGCTCATCTATCCTCTGGTTTGGCATGCAACCATTTGATTCTTCAACAGGGCCATTGCCATGAACATGGCTGGCACTGCATTCCTGGTCATCCTTGAGCACAAGGCTAGCCTGGCCATGCTCTGCACAGTGTGCCGGAGTGCCATGGCAGCTAAGTTCATCAGCTTCTACTTCAGTGAACACTGCATTGTCCAAAGGCATCACCTTTGCAGGGATAGCTAGTTGCTTGCCATGCTCTACCATTTTCTAATTTGCTTCTCCAATCAAACCATTATATTATGTCCTAGCAAGAATATTCGGATACTCCCTGGGCGTTCCAAAACCGCGCCTCACCGCGCTCGCCGCCATCGAGACGACGGGCGGAGGCGCCGGTGCCGGCGCGACCCGGGGAATCGGCGGCCGGGCAGGACCGCGGGTGAAGTGGAATCCCGGGCCGCCGCCGCCGCCGCCGCCGCGTGGAATCGGGGAAAGGATTTGGCTCGGATTTTGGGGGAGAAACGGAGGAGGAGGGGGAGGAGGGTTGGGTGGGTGCGCCGCACGTGCGGCGAGCGGAGGAAGA

Coding Potentia
Explanation CPC Score
noncoding -1.09454
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa02LNT0168800.1 2 21326073 A G
Osa02LNT0168800.1 2 21326242 G A
Osa02LNT0168800.1 2 21327144 A G
Osa02LNT0168800.1 2 21327194 T A
Osa02LNT0168800.1 2 21327867 C G
Osa02LNT0168800.1 2 21328904 A C
Osa02LNT0168800.1 2 21329057 G A
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa02LNT0168800.1 osa-miR812v Translation 5.0 15.246 1 24
Osa02LNT0168800.1 osa-miR5834 Cleavage 5.0 19.035 1 21
Osa02LNT0168800.1 osa-miR1319a Translation 4.5 20.751 1 24
Osa02LNT0168800.1 osa-miR2098-3p Cleavage 3.5 22.785 1 20
Osa02LNT0168800.1 osa-miR5338 Cleavage 5.0 21.157 1 21
Osa02LNT0168800.1 osa-miR5490 Cleavage 4.5 12.915 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa02LNT0168800.1 2 nan Resistance or Tolerance Drought tolerance RG157 RZ318
Osa02LNT0168800.1 2 qPH-2 Morphological trait Dwarf RG324 RG83
Osa02LNT0168800.1 2 nan Resistance or Tolerance Insect resistance RG157 RZ318
Osa02LNT0168800.1 2 np2.2 Morphological trait Culm/leaf RM324 RM262
Osa02LNT0168800.1 2 qSS-2 Physiological trait Sterility RM301 RM263
Osa02LNT0168800.1 2 qRTH-2 Morphological trait Root RM262 RM341
Osa02LNT0168800.1 2 qSTA-2 Morphological trait Root RM262 RM341
Osa02LNT0168800.1 2 qRTT2-1 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