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

>Osa06LNT0357400.1

TTCCTTTTTTTCTCTTTTCCCCCTTTCTCCACCTTTCACTGTGACCCGTGCAGGAAAAAAAAGGAAAAAAAAGAAGAATGAGAGGAAAACAAAAAAGAAGAAAAAAAAGAAGAAGAAAAGGACACGTCAAGTCCATGTGGCATTGCCACATCAGTGTCACATATGATCCTAAAGAGGATATGTCAATTTAGGACCTAGATGATACACTTTGACAAATTCTGGAATCTGAATATGCATTTTAAGAGTTTAGGGACCTATATGTCATAATCCTACAAGTTTAAGGACCGCCAATACACTTTACTCATATAAATATATATACACATGATTGGTGTTCTATGAAGCACATACCAATATACCATACACGCACAAACCTATAAACACACGATACCAAAAATTCTTATAATCGCCCCGTGTTGGAATTGCTTGTGATCAATCAGAACATCTTGGGCTTGGACGGTGCGAGCATGGCGAGGTGAAGAAAGCCGCACCCAAGCAGCAGAAGCAGGAAGGACAGGAAGACCGCCACCGGTTCAGTGACCAAGCCAGACCACAATGCCAACACTGATAAGACCATCAGGGCGTAGCCGCTCCAGGCCAGACTGCCCTCATCCGGAATGGCGTTCTCCTCCTCCATCTCTGCATTATTCACCATTCCATCCCTGCACGTTGCAAGAGTAATGTAAGTTTTGTATGGTTACACCCACAACCCAATTTGTGAATGGTGTGTGAAACTGTTTACTCGCATGGGATCCCATATGGCATGAACATGACACTGAGGGTTTCAGGGCAGCACACACGAGTTATGTAAGAATAAAACCAATTATATGTGAATTAGGAAAATATATCAGATCCCGTGGTCTAGATTTTCAACAAGTCATGGTTGATCCATTCCCTGCTTTTATAGGATGGTTTGCAACAAAAGAATTAGTGGTATGTGTCTTAACGTCCTGTGCTTGCTGGCGCTGCTACACCTTGGCTGTTGTTGCCACCGTGCTGATGATAATATACAGGAAAAGCGATTTGAAAACCGTAGAGCCTGAGGCAGCCGATGAACCAGGTCATCAACGCAAGAAGCAGCAGAGGCCACGGCACATGTACCACCTGCCAAGGCAAAACCATCATCGGGGCTGCACCGAACAGCATGAGACTGAACCCTGACCAATTAAACTGATGGGCACCATTGGCTGGCACCCCGCGGTTATGGTCAGGGCCTGCATTCACCCTGTTGAGATCAACAAGCTGGCCACCACGGAGGTGGTGCACGTTGTGCATCAGCATCTTGACGAGGACCGTGCGTGGGGTGAGCCTCGCGGAGATCGAATCGAATCGGTCGCGCGGTGAACGAGGGGCTCACCGTCACCGGAGAGACGACGAGGCGGGGGAGGGGCGGCGGCGCGGCGGGGGAGGTCTCCGCGATGGGCGGCGGCGAGAGGGGGGAGGGGGAGGAGTGGGAGATGCCACTGTGTCGGCTCGCGGAGAAAAG

Coding Potentia
Explanation CPC Score
noncoding -1.03961
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa06LNT0357400.1 6 27953738 A G
Osa06LNT0357400.1 6 27954252 A G
Osa06LNT0357400.1 6 27954376 T C
Osa06LNT0357400.1 6 27955019 C T
Osa06LNT0357400.1 6 27955369 G A
Osa06LNT0357400.1 6 27954199 C A
Osa06LNT0357400.1 6 27953497 G A
Osa06LNT0357400.1 6 27953267 C T
Osa06LNT0357400.1 6 27953525 T C
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
Osa06LNT0357400.1 DTM_#DNAt_MULE_japo_Os0229 Chr6 - 27953021 27953559 302
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa06LNT0357400.1 osa-miR5534a Cleavage 5.0 20.605 1 21
Osa06LNT0357400.1 osa-miR5827 Translation 4.5 14.457 1 21
Osa06LNT0357400.1 osa-miR2090 Cleavage 4.5 12.864 1 22
Osa06LNT0357400.1 osa-miR2874 Cleavage 5.0 22.851 1 24
Osa06LNT0357400.1 osa-miR2919 Cleavage 3.0 24.648 1 19
Osa06LNT0357400.1 osa-miR1425-3p Translation 3.5 16.665 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa06LNT0357400.1 6 amy6-1 Physiological trait Eating quality RM3 RM217
Osa06LNT0357400.1 6 asv6-1 Physiological trait Eating quality RM3 RM217
Osa06LNT0357400.1 6 qREP-6 Resistance or Tolerance Other soil stress tolerance nan nan
Osa06LNT0357400.1 6 tgw6.1 Physiological trait Source activity RG264 RM3
Osa06LNT0357400.1 6 nan Morphological trait Root RM4447 RM5509
Osa06LNT0357400.1 6 qLDLJ-6-1,2,3 Physiological trait Source activity RM217 RM3
Osa06LNT0357400.1 6 ph6 Morphological trait Dwarf RZ667 RG653
Osa06LNT0357400.1 6 ppl6.1 Resistance or Tolerance Drought tolerance RM3 CDO78
Osa06LNT0357400.1 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