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

>Osa06LNT0357500.3

GGAAGAAGAGCCATGGCCATTCAGAAAACTGAAGAGCAGCATTCAGCATTTTTCCATTTGCAGGGGATATGATGTTTGGCTATACATGCACTTGCGCATAATGCACATGTCGCCAGACAGGCCCTAACTCAAAAGCAGATTCCAAGGAGATCTCCAATAAAACCAGAGAATGATGTGGTCACCAAAGATAAGTGAAAGACACCAACAAGGATGGAAGGGACCAATGAAATGGGCAGGAAGTAATAAGCCTTAGGAAGCAGAGAACAAGTGATGGAAATAAATGACAAAATAAGGGAGGATATGGAGGTAGCCAAGAGGACTATGGAAAGTTTCAGCTGGTTGATGGCGCTGATGATGTGCTCTGGCTTGATTGTCATCAACTTCAGGGTGTGGAACATGAGGGAAATTGCGGTGACAAAGGCTGTGAATGCAAAGGAGGAGGCGAATTTCAGTCCGAGTGGAAGTTTGAGTGCATCTCCACGAAGAAATAGAATGTCAATCAGGGGGACTGTAGAGATTGTGACGAGGAGCAATGCAAATTTCAGGGTCGACATACATGCATGGATATCCAGAAGAATTAACTTAATTCTTGGGGGCAAATGAAAGAAGCAAAAAAAGAAAAAAAAATTGGCGAGCTGTACCGATGTGAGAAGCTGAAATGGAGGGGATTTATTTTCTTAC

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.836862
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa06LNT0357500.3 6 27960937 A G
Osa06LNT0357500.3 6 27963188 G A
Osa06LNT0357500.3 6 27963299 T A
Osa06LNT0357500.3 6 27963655 T C
Osa06LNT0357500.3 6 27963876 C A
Osa06LNT0357500.3 6 27963912 T C
Osa06LNT0357500.3 6 27963964 T G
Osa06LNT0357500.3 6 27964064 C T
Osa06LNT0357500.3 6 27964312 T G
Osa06LNT0357500.3 6 27964524 C T
Osa06LNT0357500.3 6 27965401 C A
Osa06LNT0357500.3 6 27965404 A T
Osa06LNT0357500.3 6 27966704 A T
Osa06LNT0357500.3 6 27966920 A T
Osa06LNT0357500.3 6 27967556 C T
Osa06LNT0357500.3 6 27967872 A C
Osa06LNT0357500.3 6 27968014 A T
Osa06LNT0357500.3 6 27968212 T C
Osa06LNT0357500.3 6 27968278 G A
Osa06LNT0357500.3 6 27968547 C T
Osa06LNT0357500.3 6 27968580 T A
Osa06LNT0357500.3 6 27968942 T C
Osa06LNT0357500.3 6 27969148 T C
Osa06LNT0357500.3 6 27969979 C G
Osa06LNT0357500.3 6 27961305 A C
Osa06LNT0357500.3 6 27964301 A G
Osa06LNT0357500.3 6 27968477 T C
Osa06LNT0357500.3 6 27962053 A G
Osa06LNT0357500.3 6 27962090 A G
Osa06LNT0357500.3 6 27964983 T A
Osa06LNT0357500.3 6 27965104 A G
Osa06LNT0357500.3 6 27965138 A G
Osa06LNT0357500.3 6 27965160 T C
Osa06LNT0357500.3 6 27962052 A C
Osa06LNT0357500.3 6 27962110 A G
Osa06LNT0357500.3 6 27962115 C T
Osa06LNT0357500.3 6 27962211 A G
Osa06LNT0357500.3 6 27962356 T C
Osa06LNT0357500.3 6 27962032 T C
Osa06LNT0357500.3 6 27961028 G A
Osa06LNT0357500.3 6 27962754 G T
Osa06LNT0357500.3 6 27963031 A C
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
Osa06LNT0357500.3 DTM_#DNAt_MULE_japo_Os0218 Chr6 + 27961939 27962414 475
Osa06LNT0357500.3 DTM_#DNAt_MULE_japo_Os0085 Chr6 + 27964978 27965322 344
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa06LNT0357500.3 osa-miR1432-3p Translation 4.0 17.661 1 21
Osa06LNT0357500.3 osa-miR319a-3p.2-3p Cleavage 5.0 15.646 1 20
Osa06LNT0357500.3 osa-miR319b Cleavage 5.0 15.646 1 20
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa06LNT0357500.3 6 amy6-1 Physiological trait Eating quality RM3 RM217
Osa06LNT0357500.3 6 asv6-1 Physiological trait Eating quality RM3 RM217
Osa06LNT0357500.3 6 qREP-6 Resistance or Tolerance Other soil stress tolerance nan nan
Osa06LNT0357500.3 6 tgw6.1 Physiological trait Source activity RG264 RM3
Osa06LNT0357500.3 6 nan Morphological trait Culm/leaf RG653 RZ140
Osa06LNT0357500.3 6 nan Morphological trait Root RM4447 RM5509
Osa06LNT0357500.3 6 ph6 Morphological trait Dwarf RZ667 RG653
Osa06LNT0357500.3 6 qLDLJ-6-1,2,3 Physiological trait Source activity RM217 RM3
Osa06LNT0357500.3 6 ppl6.1 Resistance or Tolerance Drought tolerance RM3 CDO78
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