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

>Osa06LNT0358700.1

GCAGACAAATATGTGTCGTTGGATTTTAAGAATGAAAAATGAGTAAAAACAGTTGGTGCATTGTAGGGTAGAAGATACAATTAAGAAAACAGGTAAAATGAAAAATGGATGTGATACAAAGAACTATATAAACTTACAATCAGTATATGAACAAAGAATATCTACGCACAATCAATATCTGTCTATAGTTTAAGCTCTACACATGCAAGGCGTAAGGGGGTTTTCCCAGAGGTCGTAGTGTGGGAATGTGGACTCAGGGAGGCCAGTTCGTGTCTGGTGAGTGATCATCACATCCTCCACGAAAGTTGCCCATGGCATGTAGGGATCGCCGAAGAACTTGGACATGAGGCCCTTGTCTGGCTTGATAGACTTGAGCCGATGCCGACCCATGTAGCGGCGGAAACCGATGATCAGCTTGGCGAAATTGCCACCGTGGGTCATGACGAACACGTCCGATTTCAGGCAAACCAGGAAGTCCAATGCAGCAAGGCTGGTCACATGCTTCTTGAAGTGTTCTATCTCCTCTTTGCTTGCAAGATCTTCTTTTGTAACCAAATTGGGGAACATATTCCTTAGCGGAGCCATTCTATTGCTTCCACCATAAACTTGACCGGATGCAACATATATCTGAGTTTCCTTTGTATATCCCATTGCACGTAAAATAATACCTATTTCCCCAGGCTCAAGAGGGCAGCGACCTTCTTTTCTTTTCTCCAGTGCTAATGACCAAAGGTGAGATCCATTCTTGAAGCGTCTTGGCCATTGTTTCTGTCTATAATCAGCCATCATTGCTTTCTCCTCTCTAGTTCCCGCAAAATCGCAAAATGAAAGACCCACCATTCCTTTCTCAAACCTAAGATGAAGAGCCATGTATGGATTTACATTGCCCGTTCGGTTCCTCATCCTTGTTGCTAGCTTCTCAGCCATTTCTTCGATTTCAGGTAAAAACTTCAAGGCATGGTAATTAACTCTGCATCTGAGCCGGTTAATCTCCATTGGAACATTATCATACCCCAGCCTATCAACAAATGGCTTGATAGACATTATCTTTTTATCTTTGATCCTCGGAAGTACATTGTCAATGTAGAACTGCGCCGATGCATACTTTGGAATATTTTTCACAGTTCGCTTTATACTGGTGAAAAGTTCATCTTTTTCTGTGAACCATTCAGGAATATCTCGAACAATGCGTACATCATCCTTCAAGTAATTTATGAAATAATCTACATCAAAGATATCTTCAAATTTCGTTTGATCTTTCCAGATTTGATCCTGCTTCAGCACAGGTAAAATAAGTGTGGCATTCATTATCTTAGCAATTGCAACAGCATTACATATGGCTATTCGCTGCTGGTTTAATCCACCCTCGGCATGAATAAAAATATACCCAGAGGTTTCATTCTCTGGTACAAGATCTGAGATCTCATCACTACGGCGCTCGGCGCAGGGCTTCCAAGATGCCGCTGCAGCATGCGGATTCTCCCAGAGAGATTCCCGCTCGTTCACCCTGGGGCAGTGGAGCCGAATCCCGTCCTTGCGGCACAGATAGGGCGCGTTGATGCGTGACCAGACGGAAGGAGCGGAGACGAGAGCGGCGACGAAGAGGCAGGCGACGACGGCGACCAGGATCCGGTAGGACGCCGAGGCGGTCGGCGACCTGGGATCCTCGAGCGCGAGGAGTGACCGGAGCGGGGAGGGGAGGTGGTACTTCTGGTGGTGGAGTGGAGCGGACGAGCGGGGCGCCCCGTCCTTGCCGTCCCCGCCTCCGCCGCCGCGCGGGGAGGAGGAGGAGGCCACGAAGGGGGAGGACGAGGCGGAGGACTCCGCGTCGCGCTTGGCCGGCGAGCTCGACGCGCGCGTCGCCGCCGCCGCCGCCGTGGCGTGCCGTAGCTCCGCCATGCCGCTGTCGGCGGTGACGGGAGTGTCGTTGGATTGGCTCCGCTGCGCTTCCTGGGCCAGATTTTCTGGTTGCGG

Coding Potentia
Explanation CPC Score
noncoding -1.07438
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa06LNT0358700.1 6 28658798 A C
Osa06LNT0358700.1 6 28658880 C T
Osa06LNT0358700.1 6 28661025 T C
Osa06LNT0358700.1 6 28661499 C T
Osa06LNT0358700.1 6 28661603 T G
Osa06LNT0358700.1 6 28661667 T C
Osa06LNT0358700.1 6 28662490 T G
Osa06LNT0358700.1 6 28662585 A G
Osa06LNT0358700.1 6 28660013 C T
Osa06LNT0358700.1 6 28660150 A G
Osa06LNT0358700.1 6 28660911 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
Osa06LNT0358700.1 osa-miR5793 Cleavage 5.0 18.884 1 21
Osa06LNT0358700.1 osa-miR5793 Translation 5.0 19.998 1 21
Osa06LNT0358700.1 osa-miR395f Cleavage 5.0 7.537 1 21
Osa06LNT0358700.1 osa-miR1432-3p Cleavage 5.0 16.984 1 21
Osa06LNT0358700.1 osa-miR1855 Translation 4.0 15.221 1 21
Osa06LNT0358700.1 osa-miR1866-5p Cleavage 4.5 10.158 1 24
Osa06LNT0358700.1 osa-miR5153 Translation 4.5 9.717 1 24
Osa06LNT0358700.1 osa-miR5498 Cleavage 5.0 22.03 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa06LNT0358700.1 6 qLVG6 Resistance or Tolerance Cold tolerance RM340 RM30
Osa06LNT0358700.1 6 qREP-6 Resistance or Tolerance Other soil stress tolerance nan nan
Osa06LNT0358700.1 6 nan Morphological trait Root RM4447 RM5509
Osa06LNT0358700.1 6 ph6 Morphological trait Dwarf RZ667 RG653
Osa06LNT0358700.1 6 nan Morphological trait Culm/leaf RG653 RZ140
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