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

>Osa06LNT0347900.2

AGGCTAACGGCCTCGGGCGTGGAGGAGGTGCCGGTGATGTTCTTGAAGGTGATGTCCTTGATGGTGACCTTGGAGTTGCCGTTGGCAGTGCAGATCTTGTTGGGGCAGTACTTCATGTCGATGATGATGGGGTTAGCAACGTCCTCCATCTTGATGTTCTCGTAGGTAAACTTGGAGGCGGTGAGCACCGAGGCGGCGTCCTCATAGGACTTGATCCGGACGCCATTGGTGGACTTCTTGAGCACGCAGTTCTTGACGGTAACATCCGTCACATCCTTCTCGTCCTTGTACCTGCCCAGGCTACCGACGCTGATGCCGTGGCCAGGACCGCAGGTGACGCCGGAGATGTTGACGCCCTCGGTGCCGGGGCCGATGGAGATGCAATCATCGCCGGTGCCGATGACCGTGTCAATGATGCTGATCTTGGAGGAGTCGCCCATGTGGATGCCGTCCGTGTTCGGGCTGTCCCCCGGCGCGGTGATGGTCACGTCCTTGATGGTGATGTTCTTACTCTTGAACACGTTCATGTGGAAGAACTTGGGGTTCACCAGAGAGATGCCGCTGATGAGACCGTTGTTCACGAAGTCCAGCACCAAAGAAAGCATGCATGCATACGTTGGGGAGGATCTTGCAGTCGTATTTCTTGGCGCAGGAGTTCTTGCTCCAGACGGCGGCGCCCTGGCCGTCGAGCTTGCCCTTGCCGCTGATTTCGAGGCTTTCGAGGCGCATGATCTCGATCCAGTTCGACTTGAATAAGGCGAGGTCGGTGGAGCCGAGCAGGTTTCCGTCGAGCTGGATGACGATGTCGCCCTTGCATGGCCCGGTGAAGTTGAGGGGACCCGTCAAGAAGTCGCCCTTGGGGACGACGATCGTCTGCTTGCCGGTGCCAGCGCACGCCGCCGTCCACGCCTCGTTGACCGCCTTGGTGCTGTCCGTCTTGCCGTCGCCCTTGCCGCCCAGCTTCACCACGTCGTGGCGCAGCGGAGATGGCAAGGACGGCGGCCGGCGGAGTGGAGCGGGGCGGCGGCGGCGGTGGATGAGCGTGCGGCCGGCGGAGCGGGAGCGTCGGCCGAGCGAAGTGGCAGCGGCGGCGAGCGAGCGCACGGTAGGCGGCAGCTAGCGGCGGCGAGCGAGCGCGCGATAGGAACCGCGGCGGCGGGCGGCTG

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.0709038
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa06LNT0347900.2 6 20582106 G A
Osa06LNT0347900.2 6 20582635 T G
Osa06LNT0347900.2 6 20582842 G T
Osa06LNT0347900.2 6 20582966 T C
Osa06LNT0347900.2 6 20583244 A G
Osa06LNT0347900.2 6 20583397 T C
Osa06LNT0347900.2 6 20583513 T C
Osa06LNT0347900.2 6 20583535 T G
Osa06LNT0347900.2 6 20583943 A G
Osa06LNT0347900.2 6 20583994 T C
Osa06LNT0347900.2 6 20584046 C G
Osa06LNT0347900.2 6 20584058 C G
Osa06LNT0347900.2 6 20584224 C T
Osa06LNT0347900.2 6 20584272 A G
Osa06LNT0347900.2 6 20588077 G A
Osa06LNT0347900.2 6 20588309 A G
Osa06LNT0347900.2 6 20588390 A G
Osa06LNT0347900.2 6 20588581 T A
Osa06LNT0347900.2 6 20588585 T G
Osa06LNT0347900.2 6 20588712 T G
Osa06LNT0347900.2 6 20589053 T C
Osa06LNT0347900.2 6 20589131 C T
Osa06LNT0347900.2 6 20589522 A G
Osa06LNT0347900.2 6 20589806 T C
Osa06LNT0347900.2 6 20589943 A G
Osa06LNT0347900.2 6 20590113 A G
Osa06LNT0347900.2 6 20590173 C T
Osa06LNT0347900.2 6 20590478 G A
Osa06LNT0347900.2 6 20591444 A G
Osa06LNT0347900.2 6 20591542 A G
Osa06LNT0347900.2 6 20591688 A G
Osa06LNT0347900.2 6 20591719 A G
Osa06LNT0347900.2 6 20591950 G A
Osa06LNT0347900.2 6 20592178 T G
Osa06LNT0347900.2 6 20593485 C A
Osa06LNT0347900.2 6 20591726 A T
Osa06LNT0347900.2 6 20591757 G A
Osa06LNT0347900.2 6 20583953 A G
Osa06LNT0347900.2 6 20592136 C G
Osa06LNT0347900.2 6 20589800 A T
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
Osa06LNT0347900.2 DTM_#DNAt_MULE_japo_Os0053 Chr6 + 20597209 20598397 503
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa06LNT0347900.2 6 amy6-1 Physiological trait Eating quality RM3 RM217
Osa06LNT0347900.2 6 asv6-1 Physiological trait Eating quality RM3 RM217
Osa06LNT0347900.2 6 tgw6.1 Physiological trait Source activity RG264 RM3
Osa06LNT0347900.2 6 qPHw6-2 Resistance or Tolerance Other soil stress tolerance RG424 RZ667
Osa06LNT0347900.2 6 qSFWd6 Resistance or Tolerance Other soil stress tolerance RG424 RZ667
Osa06LNT0347900.2 6 ph6 Morphological trait Dwarf RZ667 RG653
Osa06LNT0347900.2 6 qGY6-1 Morphological trait Seed RZ667 RG424
Osa06LNT0347900.2 6 qLDLJ-6-1,2,3 Physiological trait Source activity RM217 RM3
Osa06LNT0347900.2 6 gp6 Morphological trait Panicle/flower RZ667 RG424
Osa06LNT0347900.2 6 qRS6-1 Morphological trait Shoot/Seedling RZ667 RG424
Osa06LNT0347900.2 6 qLVBSL6-1 Morphological trait Panicle/flower RZ667 RG424
Osa06LNT0347900.2 6 qHD-6-1 Physiological trait Flowering RG424 RZ667
Osa06LNT0347900.2 6 qLVBTL6-1 Morphological trait Panicle/flower RZ667 RG424
Osa06LNT0347900.2 6 qSL6-1 Morphological trait Culm/leaf RZ667 RG424
Osa06LNT0347900.2 6 qTL6-1 Morphological trait Culm/leaf RZ667 RG424
Osa06LNT0347900.2 6 nan Physiological trait Eating quality RM253 RM162
Osa06LNT0347900.2 6 qPH2-6-1 Morphological trait Dwarf RG424 RZ667
Osa06LNT0347900.2 6 qTN2-6-1 Morphological trait Culm/leaf RG424 RZ667
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