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

>Osa02LNT0166200.1

GCTTGGGACACCAATGGGAAGAGTGAATTGAATCATTGAAGTTTGTTCTAACATGTGTGGCGTGTTTATACAAGTATTGTAGGCACCTGTTTCGAAGAAATACAACAACCTGGGTATGGACAGTGTTTCAAGGGAAGTTTTATCGAACTATACACTCATGTTACAGCTAAGCTATAGGGGTGGAATAAACAGTTGCCTTCCGGAAGCAACAAAAATTTACTGGCATCCGCTTGGCAACATCCAAGTAAGACATTTGGCTTGTATACCTGTAATTCAAATCATCGTCAACTATAGATTGTCCCAATCGGTCGACCGCAAAGGAATGTACTTTGATCGGTCGGTTGCGATTCCTCTGAACCCTGTTGTTCGTGAGGAGACCATCGGCATCGCAAGCACCGATGAAGCGCTGATGGTCTCCTCCCCAAGGCCAAGTGACATGGAGCAAGCCGACTTTGCCTTGGACAGTATGCGTTTTGCTTTTACTTTTACTGAACTTGTGAAGGAGTTAGTACCATCAACTTCTGTCTCCTCCGTCTGCATCTTTCCAGGCCTGTTTGCATCAATTGCAGGTTCCTGGGTGGCACTAGAACCATCTTTGGTGTCAACTTTACTGTCGTCGGGTGCCAGTAAGGAGATGCCTATAAAGACAGATGTCATGCCCAATACAAACATCACTATCCTCAGGGTATCAAATACTTGATATTCTTGAAAGTACACAAATCCTGTGCAAATAGAAAAAAAGGTCCAAGCAATCTGAAACATTGGAACAATCAGTATTGCATCAAAAAGAGACAGGCCTTCATTCAATCTCGCCATCCAAAAGCCAGCTGTAAAGAGGAACAACAGAAGCATTGAGTATGTGAACCAGCTATGGAACTGGTATCTGCTGCTCATTGTTAGCCTCAGCATGTTTGACAATGATTTTGCAAATAAGACAGAACAAGATCCAATAGCACCAGATACAATAGCATAAGAAAATGGCAACAATGTCCGCCAATGTGAGCCAGTATGTTTCGCACTATCCGAAATGATAGTTTCTCCACTCCTGTAGAGATACTGATTGAATGCAACCACAAAGACCAGTGACATGCAATAGAGAACAAACACTAAATTGCTGTATTTCGCAACTAGCTGCTCCGGGGTGTAAACTGGAGATTGATGATTACCAAAGGAAACTAGGAAGATATTGCCAAATACAATAAATGTTGTTGCTACCATGACTTTCACTGAAATGGTCTTGTTCAACACAAAGTAAGCAAATGCAATATTGGACACAAATTGAATCGATCCAAGAGCTGCAAGAAGTGACTGTGCGGCATATGCGAAGGACATGAAGTTGAGGCAGTTTCCCGCAGCAAAGAACAGTATGCCTATTCTCCAAGTTTGAAAATGCATAACTGACTTCGGAACAAATTTGTCATTGCCTTGATTGTTGTTGGTTGTCGAAAGCTTCTCTCTCTGATCATGGCCCAATTTCAGAAGGTTGGTACCAAAGTTTATGGCAACACTCCCCACAATGTTGATCAGTGCTCCTATAACCCAGTCGCCCATGAGTCAGAAAAATATAGGTGATCGCCTATAAATATATGTTGTATTCCTTCAACAAGCCCCTTGTATGACAACTCATTGCATTTGTTTTGGAATAAACACTTTGAAGACTTGACTGAATGTTCACCCCAATAGTCTGGCACAAATGTTCAATAAACCGTGTGGAGCTTATATCTTGGTTGATACGGAGCCTGCGACGGGGCCGGAGATTCTAGCTCAAGCACAAGCCAGCCTGCTCGGGCTGGATTCTCCGCCGCGAGCGAGCGAGCGAGCTGGATGAGGAGGAGGAGGAGATCGGAAATTTGCGGAAGCGTGGAGGAGGAGGAGGAGGAGGAGGAAGGGGAAGAGGAAAG

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.739571
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa02LNT0166200.1 2 18828410 T C
Osa02LNT0166200.1 2 18828523 G A
Osa02LNT0166200.1 2 18828608 T A
Osa02LNT0166200.1 2 18830127 C T
Osa02LNT0166200.1 2 18830318 G C
Osa02LNT0166200.1 2 18830834 C 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
Osa02LNT0166200.1 osa-miR5833 Translation 4.5 15.277 1 21
Osa02LNT0166200.1 osa-miR396e-5p Translation 3.5 18.881 1 21
Osa02LNT0166200.1 osa-miR827 Cleavage 5.0 16.559 1 21
Osa02LNT0166200.1 osa-miR396f-5p Translation 4.0 18.538 1 22
Osa02LNT0166200.1 osa-miR2866 Cleavage 4.5 14.419 1 20
Osa02LNT0166200.1 osa-miR2879 Cleavage 4.0 17.637 1 24
Osa02LNT0166200.1 osa-miR396g Translation 3.5 18.881 1 21
Osa02LNT0166200.1 osa-miR396h Translation 3.5 18.881 1 21
Osa02LNT0166200.1 osa-miR396d Translation 3.5 18.881 1 21
Osa02LNT0166200.1 osa-miR5488 Cleavage 4.0 18.234 1 21
Osa02LNT0166200.1 osa-miR5509 Translation 4.5 17.772 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa02LNT0166200.1 2 nan Morphological trait Root RG171 RG157
Osa02LNT0166200.1 2 np2.2 Morphological trait Culm/leaf RM324 RM262
Osa02LNT0166200.1 2 qSS-2 Physiological trait Sterility RM301 RM263
Osa02LNT0166200.1 2 2-3SY Physiological trait Source activity RG171 RG157
Osa02LNT0166200.1 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