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

>Osa11LNT0095500.2

GCGGGTTCCGGCCAGAGCTGCCGCCGGAGGGCGGTGGCGGCGGCAGCGGCGGCTACTGACGGTGGCAGAGGCGGCTCAAGGCGGTGGCTGCGCGGAGGGTGGAGCCAGCGGCGGCTTCCCTCCCTCCTCCCAGATCCGGTGTAGGCGGAGGTGGATGGTGGAGGCGGCGCGTGCCGTGTAGGGTGGACGCGGCGGCGGCTCCGCCGGGAGGGGGGAGGGCGGTGGCGGTGGCGGCCCTCCCCTCTGGATCTGGCGAGGCGGCTACGCCCTCGGCTGTATCCGCCGCCGCCGCTGTCGGATCTGGCGACCGGAGAAGACGGCGCGGCGGAGGAAGATGACCGCGATAGGCGCTGGCGACGGAGCGGCGGAGGCCGACAGGTGCGGCACCATCTTCGCCTTCATCGCCTGCCGCCCTTGCACGGGACGTCACGTGTGCGTCGGCGTCGGTGCGCCCCTCCCCCTTCTCCTTCTCCTCGCGGATCCAGTGTTCTCTGTCCTCGGGAACGGCCTGGCGGGAGCGGGAGCGCCGGCAGCGCGCGGATCTGGCCGCCTCCGCCCTCGGGAGCGGCGGCGGCGGGCTTAGGCGGGCGGGAGCGAGCGGCCACGGCTGCGGCAGCTACGACAACGACGACGGCGACGGTGGCTGCGACGACGGCAATGATGCTGACGGCAGCTGCGACGAAAATGACGATTGTCTCCTCCAACCCCGGCACCGGGCCAGCCGTCGGCGACGATTTCACCTGTCTCGACCATTCCGCCGCCCCCAAAAGTATCCTCCCCCACTTGCGAGAGGACGAGGGACTGGCTCAGCATCGAGCCCTCCACGAGTGTGCAGCGCATCAGATTTAGGCTGCCTTCTTTCAAAGGAGATTGGGGAGATTGTCACTCGTTTTCCGCACGCACGCTTCCCAAACTATTAAACGGTGTATTTTTTGTAAAAAATTTCTATATGAAAGTTGCTTTAAAAATTCATATTAGTCCATTTTTGAAATTTAAAATAGTTAATACTCAATTAATCATGCGCTAATGGCTTACCTCGTTTTGTGTATCTTCCCAATCATCTCGATCCCCTCACCCTTTGCCTTAGACCATGTGTGTGTGTGCCCGCGCGCATTTCTTGGTAGCGTTTGTGATGCTGTTTCTTGGCTATGCTGGATTACATCCCCACCGTGTTCGACAATTTCAGTGCTAATGTTTCAGTGGATGGGAACATCATCAACTTGGGATTATGGGGCACTGCTGGACAAGAGGATTACAGCAGGCTGAGGATTCTGAGCTACAGAGGAGCGGATATATTTGTGCTAGCATTCTCACTGATCAGCAGAGCGAGCCATGAGAATGTTCTCAAGGAGATACTGTACCAAAAACTTTACCTTTCCCTTCTCTGGTGGCGACGTTGGGTCAGGTGGCGGCGTCGGAGCCGGCGCCGGTGTCCCCCCCCCTTCTCCCTCCGCTCGCGGCGGTGTCGGGCGGGTGGCGCGTGGAACTGATGCCACCGGGGGAATCCTTAGCTCCCACTTGATGTTTCTCATGAGGATGGAGTAAGACCGCGGGTTAACCATTTTCTCACTGGACGGGCGTCTGTTCCAGGTCGAGTATGCCATTGAGGTCATCAAGGCTATCTCAAAAGGAAGGCAAAGCATAGAAGCACAGAACATTGTTCGAGTGAGTGCATATCTATTCCTTCGTTAGTATGTACAGCAGGAAAATTATGAAATCTTGGTTCTTCAAACTGAGTTCTTGGATTACCTCTTGCAACTTTACTTGGCCAATATACGCCTCAAGAATGCAGCAACTGATGTAGTTATTACTGTATATGAGCCACTGTTGATAAAATGGTCTTATGGAAGCAACACTATCTCATGCTCGTTCACCTAAACAGCTTAAGGAACCCTGGTGGCCTACCAAATTGGCTTGGCAATGTAGTAGTCTCTGTTGCCATTGCTATTGTCATATGTTTTACCTGTGTGTATCTTCTTTCTTACGTTCATATATCAGGTTCTGCATCAGATTGTTACACCTGTCCTGTCCACGAGATTGCATCCATCCAGAAGGGAATGAAAAGAGCATCAAGGCATTTTTGGCAAATTATTGATTTTGTTCTTGAGCGTGGCATTTACCAATCCATTATATATATATTGGTTTTATTACAGTACAAAGAAATCAAGTTCATGTTACTCGGTGCATTGTTCATACAGATGTATAAAAATGTTGGTGTGATGTGGCAATTTGAGCAATATTGGACCTTGCTTCTTATGGCATTCCAGTTGGCTGATGATTGCAGTTACATGTTGATGGCATCCTTATATGTGTAGTTATGTGGCAAAGCTTGTTTAACTGACTATTGTCTTTGTAACAAACAACCAATTATCCTTACTATTGTTACT

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.183844
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa11LNT0095500.2 11 11408330 A G
Osa11LNT0095500.2 11 11408071 T C
Osa11LNT0095500.2 11 11408128 A G
Osa11LNT0095500.2 11 11408266 T G
Osa11LNT0095500.2 11 11408277 A G
Osa11LNT0095500.2 11 11408352 T C
Osa11LNT0095500.2 11 11408439 C G
Osa11LNT0095500.2 11 11408964 A C
Osa11LNT0095500.2 11 11408980 C T
Osa11LNT0095500.2 11 11409630 A C
Osa11LNT0095500.2 11 11409808 A T
Osa11LNT0095500.2 11 11409873 G A
Osa11LNT0095500.2 11 11411179 A G
Osa11LNT0095500.2 11 11411189 A G
Osa11LNT0095500.2 11 11408004 C T
Osa11LNT0095500.2 11 11408324 T 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
Osa11LNT0095500.2 osa-miR5532 Cleavage 4.0 17.432 1 22
Osa11LNT0095500.2 osa-miR6249a Translation 5.0 22.066 1 21
Osa11LNT0095500.2 osa-miR6249b Translation 5.0 22.066 1 21
Osa11LNT0095500.2 osa-miR169n Cleavage 5.0 13.876 1 21
Osa11LNT0095500.2 osa-miR169o Cleavage 5.0 13.876 1 21
Osa11LNT0095500.2 osa-miR815a Cleavage 3.0 4.987 1 21
Osa11LNT0095500.2 osa-miR815b Cleavage 3.0 4.987 1 21
Osa11LNT0095500.2 osa-miR815c Cleavage 3.0 4.987 1 21
Osa11LNT0095500.2 osa-miR396f-5p Translation 5.0 20.1 1 22
Osa11LNT0095500.2 osa-miR2870 Cleavage 5.0 16.018 1 21
Osa11LNT0095500.2 osa-miR5488 Translation 4.5 20.526 1 21
Osa11LNT0095500.2 osa-miR2121a Translation 4.5 9.357 1 24
Osa11LNT0095500.2 osa-miR2121b Translation 4.5 9.357 1 24
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa11LNT0095500.2 11 nan Morphological trait Seed RM332 RM229
Osa11LNT0095500.2 11 elr11-1 Physiological trait Eating quality RM1812 RM209
Osa11LNT0095500.2 11 qDLR11 Resistance or Tolerance Other soil stress tolerance RM2596 RM286
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