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

>Osa02LNT0144900.1

CAGCTGTAAATAAACCATAATGCTGCTATTATGGTAATAGTAAGTTTCAGGTACAGAAAGCCACGCAACACCTGCACTCTTGACTTCTTTTTTTTTTGTTTTTAAAAAGAAAATAACTTCATCAGTATCATCAGCTAGCAGTGTTGCCGGTCACCGATGCATCCTGCCTGCCTAACAAGACTCGGCAGCGGTACTCTCCGAGAGCCCAAATAGGGAATATGTTCCTGTACTGAGAGTAGCTGATGGCGCAGTTTTTGCTGAATGCTCCGATGATCTCTTGCTGAGGGAACTCCCCATCCTCTAATTGTAGGTTGATAAGAATCCTAGCTGCTCGGTGCAACGGCGCTGGATCTCTCTCACCCTGTCCGGCATCAATTAGCGCAAGCATGGCCCAACTGGTGTTTACTCCGTGGGGACGTTCTCCTTCAAGATTGGTGTAAACCTTTGCAAGACAAATGGCTTTCTCCCCAACCACCACAAGGAAGCTCTTTTGACAACAAGAAGTTGCATGCCTTTCTGATTGCAGGACAGTTCTCGTACGTTCTTCCAGCAGCAATTAATCCCTTCGCTCCGAACCATGTCCGAGAAGTGAAACAAACAGCCCAGGAGCCGTACCATGAACCATCACTTCTCTGAATACTCTGAATGAAACTATCAGCCTTTTGGATACAATTGTCTATTTCTTCCCTGCGGTGTCCAGGATAGTGCTTCCTAAATGCTGTCAAACCCTGGATCACCCCCGAAGTACATTCCACGTAAGGGTAATCAATCATTATGTCCCCAAAGGTCTCAGAAGGATTGAGAATCTCCAGCCAGGCATAAGACCTTGTGAGTTCATATGTTGCAAAACCACCATTGTTATTCATCCAAGACAGCAGACAATTGACAGCATCATAAAGTCTATTGACTTTTAATGGTTCACCAACAATTTCCAGAGAAATTTTTGATAACAACAATGAGGCCTTTAATCCTTCTGCAGTGCTATCTGATACAGCCCAACCTTGATCAGCAGTAGAAAAGGTCCATGCACCTTTATATATATGGCGATACCGGTAACTCAAATCTCCGGGGCAGTCATGAAGAAGCTGTGAGTTTTTTATGTAGCCATGGGCTAATTTAATAGTAGGACCAAAATCTTCTATAAGGTTGGTAGCCAGTATAGCTTGAACTGTGAAAGCTGTGTCCCAGAGCTGGCTGCCATTGTAACCTGTTGACACAACCACCTCAACTGAAAGCAAATAAAATGGATTCAAAAGATAGCCATTAGTCCCAAATATGAAATAAGCACTTGCATCTTCATGCCATCTTCAGCGACCCACAAGTAATCATGAACCCTTGGAATATGAAATCTGAATGCCTCTGAGTTAGGATTTTCTATCCAGCAAGAAAGCATATTTAATACCTTCTGTACAGCACCGCTGCAAATGTATCGAGTATTCTCATCTTCGTAATGAATATGCTGCATGGCATTCTTCAGAGCTTTCTCTCTCAATTTGCTGCCAGGCCAATGCGATAGAACTGGTTCAACAAATTTGTAAAGAGTGGCCCATAGGATATCTTGCCCTAATGGATGACGGTAGTACAGATCCTCCTTAGCGCATTGGTTACGAGCCTTGTCCCAATTAATATCATCATAGGGTATATTGTAGAGCTCCTTTCGTAGGGTCAGTACTATTGGTGTAATTGGGCCGACAAACTTCTTTCCGTAAATATAAGACATAGGCAAGTATACCATTCGGCAGTGGGACCATATCCGTCTTTTCAAGGTATTTGGTTTGGAGATAGATGGGATGGGATGAACCTGAAAGGGAATATTCTTCTAAGATCCGGGTTGGCATGGTCCCTTGAAAATTGGCAGACCAATCCAACCCACTTCTTTGTCTCGCTGACATGTGAGCCATCCCCTTAAAACTGGGACCATTTCATCCCTCATGCCAAACAGATAGATAGGGCCATCCCATCCAAAAACACAAGGATGAGTCCAACCCATCCCAACTCATTCCTAAACCAAATATATGCTTATGATGTTCAGAATAGGCACGTACCTTGAAGAATTTAACCAATCTATACATATTCCTGAACCTTCTTCCTGCACTAGCATGCACTCCAGCCAGTACCTGGATGAAATGGGAGGAAATAAGGTAGCATCCACAATTCTGGAAGCAATGGGTTGTTACCAGACCAGTCAAAGACACCAAGTACTGAAAGCCAAAATTTTCCCCATGATGTTGTGAAAGTTGCTCCTCCATGATCTAAAATCCAATTTCGAGCTATCACCATGGCTCCATCTCCACCATCTGATTCGTCTCCAAGTAATCTCAAGGTAACATAAGTCAAGACAGTACAGAACATGGTGCTTGTGCCCTCAATGTGCAGCCCCCAGCCTCCATCTTCATTCTGATGATTATAGAGATACCGGCGAATCTCCTTTTGATGTTCTGTTGATAGCACAGTATTTAGTGCACCAGTCACATGCAGTACTATAACCAAGCCTGGAAGAAGGAACATGGGACCAGCATAATCCCCAGGCCAGTGTCCATCATGTGCCTGAAGAGTAGAATAACGCCGAATCGCCCTTTTCAAAGAGGTCAGCACCGCTTCTTCTGTGACATCTTCATCCTCGCCCAGCTTGATACCAGGAATCTCCAGCTTAGAGGGATTCGATCTAGTGAATCAGCTACGCGTCGGAGCTGGGCGTCGATCCCGTGGAGGAGGCCGGCGCTGGCGAGCGCGCCAAGCCTCCGTGGCGGCGGTGCGGCCGCCATACCGCCGCCGCCGGTGGTGGCGCGACGGCGGCGAATGTATCTGCGCCTCC

Coding Potentia
Explanation CPC Score
noncoding -1.1621
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa02LNT0144900.1 2 2111625 G A
Osa02LNT0144900.1 2 2111183 G A
Osa02LNT0144900.1 2 2111849 G C
Osa02LNT0144900.1 2 2112392 A T
Osa02LNT0144900.1 2 2112393 T A
Osa02LNT0144900.1 2 2112918 G A
Osa02LNT0144900.1 2 2113206 G A
Osa02LNT0144900.1 2 2113375 C T
Osa02LNT0144900.1 2 2113618 A C
Osa02LNT0144900.1 2 2114116 A C
Osa02LNT0144900.1 2 2114435 A G
Osa02LNT0144900.1 2 2114474 T C
Osa02LNT0144900.1 2 2114476 A G
Osa02LNT0144900.1 2 2114488 A G
Osa02LNT0144900.1 2 2114687 C T
Osa02LNT0144900.1 2 2114770 T C
Osa02LNT0144900.1 2 2114807 C T
Osa02LNT0144900.1 2 2114817 A T
Osa02LNT0144900.1 2 2115806 C T
Osa02LNT0144900.1 2 2116810 C G
Osa02LNT0144900.1 2 2117034 T C
Osa02LNT0144900.1 2 2117789 C A
Osa02LNT0144900.1 2 2118208 A C
Osa02LNT0144900.1 2 2118477 G A
Osa02LNT0144900.1 2 2117759 C G
Osa02LNT0144900.1 2 2118459 A C
Osa02LNT0144900.1 2 2116389 T C
Osa02LNT0144900.1 2 2116602 C T
Osa02LNT0144900.1 2 2112967 C G
Osa02LNT0144900.1 2 2111018 T C
Osa02LNT0144900.1 2 2111460 A C
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa02LNT0144900.1 osa-miR5536 Translation 4.0 13.912 1 22
Osa02LNT0144900.1 osa-miR5536 Cleavage 4.0 18.589 1 22
Osa02LNT0144900.1 osa-miR5543 Cleavage 5.0 13.369 1 21
Osa02LNT0144900.1 osa-miR5337b Cleavage 4.5 19.55 1 21
Osa02LNT0144900.1 osa-miR6255 Cleavage 4.5 19.443 1 22
Osa02LNT0144900.1 osa-miR166k-5p Cleavage 5.0 16.778 1 21
Osa02LNT0144900.1 osa-miR1847.2 Cleavage 4.5 15.611 1 24
Osa02LNT0144900.1 osa-miR1878 Cleavage 5.0 11.967 1 24
Osa02LNT0144900.1 osa-miR1879 Translation 4.5 16.277 1 24
Osa02LNT0144900.1 osa-miR2905 Translation 4.5 18.526 1 21
Osa02LNT0144900.1 osa-miR2931 Cleavage 2.5 12.331 1 20
Osa02LNT0144900.1 osa-miR2873b Cleavage 5.0 17.325 1 21
Osa02LNT0144900.1 osa-miR5145 Translation 5.0 22.175 1 24
Osa02LNT0144900.1 osa-miR1879 Cleavage 1.5 10.106 1 24
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa02LNT0144900.1 2 S29(t) Physiological trait Sterility nan nan
Osa02LNT0144900.1 2 rb2 Physiological trait Eating quality RM236 RM279
Osa02LNT0144900.1 2 qWIJ-2 Morphological trait Seed RM233A RM8
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