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

>Osa04LNT0262800.2

GCTGTTTTAGTATTTCTGGAGCCACTGCCTCCCAAGCAGAAGAGTCTTCAAAAAACAGGTTATCAAGTTCTACTTCCTCTTCTTCTACCTCCTTTGTGCTGGTTTCATCAACATCCTTGGACATTTTTTTCTCCAAACTGGATCCTCCATCCATATGGACAGGACTCTCACATTTCTTTCCAGTTGCACCAGAGTCAACTAGATCACCCTCAGCATTTGCAATATCAGAATTTGGAAAGACATTATCTGAACTGCTGAGATCTTCCTTTGAGTTTCCAGATGAGGATTTCGCTTGTTTACCCTTCTTCTTTCGCCTACTTGGCTTTGCCTCAGCAGTTTCCAAACTTGGTGGGCAGTGATCTTCCCATGTGTAGGAATCATTAGAATTCACATCATCTTCCTCCTCTTGTTGTTCCATGTACTGCCGAATCCATGCAGCTTGTGATGATTGCCCGTCATCCAATGTCACATCTTCTTCTCGCCGCCTGCTAATTATAATTTCCAACCTCTCATTGCTCCCCTGCACCTCCTCTGACTCACGACTCTGTGGCACCCAATTGTCTTTCGCTGTTGATACTACCTTAACTGAGCCTTCTGTCCCTAAAGGCCCAGCCCCAGAAGAGGAAGCGGTGCCACTGGAGAACTTGAGGGGGAGCTCATCGCCGGGCAGATTAAAGCACAGCCAATCCAACGCCGACTCGAACGTAGCCGAATCCGATAGCGCGGAGAGCGCCTGCTCGATTTGCGCGGAGGAGAAGCCCTCGAGGGAGAGCTTGTCGTACACCCCGCGCAGCCGCCGCGCCTTCTGCTCCCTCGACTCGGCACGCGCCGCGGGAGCATCCGCCGGCGCGGGCGCTGGCGCCGCGGTCGCTCCGGAGTTGAGGAGCAGGCGGCGGAGGCGGCGCTCGTTCTCCGACGAGATCTGGAGCCGCGGCGCGGCGGAGGCGGCGCCGCCGCCGGCCGAGGACGACGAGGAGGAGGTGGAGGAGTGCTTGGGCTTCTGCTTCTGCTTCGGCGCCTGCTGCTGCTGCTTCTTCTTCGGCGCCATTCCGCCTCCGCCGAGCTCGGCCTCCGCCGCCCCGATCGTCTCCGCCGGCGGCGAGCTTGGCTACGG

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.230132
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa04LNT0262800.2 4 21443306 A T
Osa04LNT0262800.2 4 21443682 T G
Osa04LNT0262800.2 4 21443695 A G
Osa04LNT0262800.2 4 21443910 A G
Osa04LNT0262800.2 4 21443934 C T
Osa04LNT0262800.2 4 21443985 A G
Osa04LNT0262800.2 4 21444014 T G
Osa04LNT0262800.2 4 21444189 A T
Osa04LNT0262800.2 4 21444248 C T
Osa04LNT0262800.2 4 21444364 T C
Osa04LNT0262800.2 4 21444401 G A
Osa04LNT0262800.2 4 21444495 T C
Osa04LNT0262800.2 4 21444650 A T
Osa04LNT0262800.2 4 21444875 A G
Osa04LNT0262800.2 4 21444921 T C
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa04LNT0262800.2 osa-miR5544 Cleavage 4.5 8.451 1 22
Osa04LNT0262800.2 osa-miR2870 Cleavage 5.0 14.135 1 21
Osa04LNT0262800.2 osa-miR2929 Cleavage 3.5 9.988 1 21
Osa04LNT0262800.2 osa-miR408-5p Translation 5.0 14.971 1 21
Osa04LNT0262800.2 osa-miR1858a Translation 4.5 5.965 1 21
Osa04LNT0262800.2 osa-miR1858b Translation 4.5 5.965 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa04LNT0262800.2 4 qCCFJ-4 Physiological trait Source activity RM261 RM3785
Osa04LNT0262800.2 4 nan Resistance or Tolerance Other soil stress tolerance RM5586 RM3916
Osa04LNT0262800.2 4 orl1 Morphological trait Culm/leaf S10628 C377
Osa04LNT0262800.2 4 qFRP-4 Physiological trait Source activity RG788 RZ565
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