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

>Osa04LNT0263600.2

GAAAGTAAGAGGAACGAGCACCTAAGAACTATAGGAATGGGAGGCATCAGGAAAATCATCAGACCAAATCTCCAATACCAGAGCTACAAGAAACAGAAGCTTGAACATTTTCTTCAGAGTACTAGAGTATATATAGACCTATGCAGTGCAGGGCTGTGAAGGATAAATGAATTGAATCTGGTAGATGGTGCACAATAGGACACTGAAGTGAATGATCACATATATTGGCCAAGAAACATGTACAAGTCACTGTACAACATCTGCAGGGATGTGATCTTCTGGGTACATCAGAAAGCTGATTGACATAATGAAGAGTAAGCAGAGAACAGTGCAGACACTTGGGATCTTTTGAGAGTAAGAATTCAGAGTGGAGAAAGAGTCAATGTGAATCTGAATTTAAAGTGGATCCTGTGGACTGGATTCTGATGAATAAACATGGTTGATGTCAATGAGCAGACGATTGGATCAGCTTGGACTGAACACGTACTATTTTCTGACTGCAAGTCCAAGGAGAGTAACAACTCTTCAGCCATGCGCAACGGCATCAAATAACTCGAATGCAGGAAGAACAAGGAAATGAAGAAATCGTGAAGGGCATCATGCAACCTCTGCAAAGTTTAAGAGATATTAATAAACTCAAATATTCTTGTTTCAATTTTGGTGAGAGGCGTATATATAGGTACTACCTTTCTGTTCGGACTAAGTTACAATGTGCAAATAGATGCTAATTTATGTACTTGTCCATTTGGTTGATGTTATGTTCCATATGAGATCTCAATAGTGAC

Coding Potentia
Explanation CPC Score
noncoding -1.17848
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa04LNT0263600.2 4 21656401 T C
Osa04LNT0263600.2 4 21656703 A G
Osa04LNT0263600.2 4 21656783 T C
Osa04LNT0263600.2 4 21656798 C G
Osa04LNT0263600.2 4 21657372 T C
Osa04LNT0263600.2 4 21656761 A G
Osa04LNT0263600.2 4 21656818 T G
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa04LNT0263600.2 osa-miR156j-3p Cleavage 3.5 13.408 1 19
Osa04LNT0263600.2 osa-miR156j-3p Translation 5.0 14.487 1 22
Osa04LNT0263600.2 osa-miR1429-3p Cleavage 4.5 18.224 1 21
Osa04LNT0263600.2 osa-miR2118a Cleavage 2.0 12.379 1 22
Osa04LNT0263600.2 osa-miR2118b Cleavage 1.5 12.379 1 22
Osa04LNT0263600.2 osa-miR2118c Cleavage 2.0 12.379 1 22
Osa04LNT0263600.2 osa-miR2118d Cleavage 1.0 12.379 1 22
Osa04LNT0263600.2 osa-miR2118e Cleavage 4.0 12.379 1 22
Osa04LNT0263600.2 osa-miR2118f Cleavage 0.0 12.379 1 22
Osa04LNT0263600.2 osa-miR2118g Cleavage 1.5 12.379 1 22
Osa04LNT0263600.2 osa-miR2118h Cleavage 0.5 12.379 1 22
Osa04LNT0263600.2 osa-miR2118i Cleavage 2.0 12.379 1 22
Osa04LNT0263600.2 osa-miR2118j Cleavage 0.0 12.379 1 22
Osa04LNT0263600.2 osa-miR2118k Cleavage 0.5 12.379 1 22
Osa04LNT0263600.2 osa-miR2118l Cleavage 2.0 12.379 1 22
Osa04LNT0263600.2 osa-miR2118m Cleavage 0.0 12.379 1 22
Osa04LNT0263600.2 osa-miR2118n Cleavage 1.5 12.379 1 22
Osa04LNT0263600.2 osa-miR2118o Cleavage 3.0 12.379 1 22
Osa04LNT0263600.2 osa-miR2118p Cleavage 2.5 12.379 1 22
Osa04LNT0263600.2 osa-miR2118q Cleavage 2.0 12.379 1 22
Osa04LNT0263600.2 osa-miR2118r Cleavage 4.0 12.379 1 22
Osa04LNT0263600.2 osa-miR2864.2 Cleavage 5.0 16.74 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa04LNT0263600.2 4 orl1 Morphological trait Culm/leaf S10628 C377
Osa04LNT0263600.2 4 qCCFJ-4 Physiological trait Source activity RM261 RM3785
Osa04LNT0263600.2 4 nan Resistance or Tolerance Other soil stress tolerance RM5586 RM3916
Osa04LNT0263600.2 4 gpp4 Morphological trait Seed RZ569 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