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

>Osa03LNT0241500.3

GTCCCCTCAAGGGATGAAAATCCACATCCATATATAACATGACCTAAACCTCCATTTGCACATAAATGGATGACAACAGTAGAGGGTAGCAGACTAGGTAACCTCTTTATGACAATAATTTTATCCCAAGGCATTCTCGTTTTCCTTGTGCTATACAATGATGATTTCAATTGTAGGAAAAGCATGCAGTTTATAATTGGTTCAATGTATATGACTTATGACTGTTATGAATCTGTTTATGTGTACAGAATATTGCAATGCAACTATCTTTAAGTGTTAGCACACACATCTTAAATAAATCTCAGTTCTGAAACTAATCAACAACTGCCAAAGATTCTGAAAATATATACGTTACATAACAGACAGCATGTCTGACGCATTGTTGAAGTGGAGGGAAAATTAATGGCATGATCGTTAGTCAATCAATAGCAATAGCTGGTATACTCACTGATTTAGTGAAAGAGAAGCTTTGCCACAATTTCGAGTCTAGGAATCGATGATTCTTTTAAAAGGATTCTTTTCAAGAATTACATTGTCCCAAAACAGAAAAACTGCCACCAAATTAACCTCACATTGGCAGACAAAGTCCAGCAGCAAAAAAATTTAGGAACATCATCTTGTAGCATACAAAGAGACAAAAATGAAAATATAAATTTTAACTTGCACCAATTGTCAATTCTTCAGAGATTGCAGTTAAGAATTCAAGTAGGCAAAGAATGAAAACAACTGATAGTATTGATGCAATAATGATCCTACACTATCATCCACATGACCGTTTTTTGAATGAGATATATATAGCGATGTATGGATAGCACTGCTGCACAGCTCAATTCTAAAGGGCTAAGCCAAAGGTGGCCTGTGTTCAAGTTGGTCCAACTTTAGATGATTAGTTAGAGTCATAACAGCTCTGATACTTAAACTTTATGGCCTTCGAACAAAAGCAGGTTCTCTTTAGAAATTTGGCAACATTCTCTTCGCCACCAAAAAGAGAGAGATAGATAGGAGGAAACGTACCTCATCTTCCTAACAACGTTGGCCATCTCCTCACGCTTCGTCTTAGCTCTCTAGCTAGTGTGCTTTTTGCTACCTTCAGCGCACGACTGCACGTTTTTCTTTCTTTTCTGGCTTTCAGAAGCGCGGTGATATGTTTCTCATGTGGTGCTAACCCGGCTACTTGCTCATTTACAGATCCCAATAGTCATAGCCATTAAGCCGTAGCCGATGGATCTCAGACCAACAAACAGCGCCGCCCTTCGCCGGCGGCGGCGCCATCTTACCGTCCCTGTGAGCTTACGCCGACGGAGTGTGAGAACGGCGATGGCGACGGCGGCGGCGGCGGCGCTAGGGTTTAGGCGGCGGAGAGGGGTTGCTGCTAAGTAGGAGTGGC

Coding Potentia
Explanation CPC Score
noncoding -1.10873
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa03LNT0241500.3 3 34470956 A C
Osa03LNT0241500.3 3 34471824 A G
Osa03LNT0241500.3 3 34472594 T C
Osa03LNT0241500.3 3 34472724 T C
Osa03LNT0241500.3 3 34473159 C T
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
Osa03LNT0241500.3 DTM_#DNAt_MULE_japo_Os0084 Chr3 - 34470312 34470684 28
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa03LNT0241500.3 osa-miR5822 Cleavage 3.5 11.483 1 21
Osa03LNT0241500.3 osa-miR6253 Translation 4.5 14.125 1 22
Osa03LNT0241500.3 osa-miR6255 Cleavage 4.0 14.08 1 22
Osa03LNT0241500.3 osa-miR1856 Translation 4.5 13.985 1 21
Osa03LNT0241500.3 osa-miR1428b Cleavage 5.0 14.584 1 21
Osa03LNT0241500.3 osa-miR1428c Cleavage 5.0 14.584 1 21
Osa03LNT0241500.3 osa-miR1428d Cleavage 5.0 14.584 1 21
Osa03LNT0241500.3 osa-miR1428e-3p Cleavage 5.0 14.584 1 21
Osa03LNT0241500.3 osa-miR1868 Cleavage 4.5 10.582 1 24
Osa03LNT0241500.3 osa-miR2878-3p Translation 4.5 14.078 1 24
Osa03LNT0241500.3 osa-miR5145 Cleavage 4.0 10.615 1 24
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa03LNT0241500.3 3 nan Morphological trait Panicle/flower G249 RG418
Osa03LNT0241500.3 3 qSBR-3 Resistance or Tolerance Sheath blight resistance G249 G164
Osa03LNT0241500.3 3 spp3.1 Morphological trait Panicle/flower RM130 RG1356
Osa03LNT0241500.3 3 yld3.2 Morphological trait Seed RM130 RG1356
Osa03LNT0241500.3 3 qPES-3 Morphological trait Panicle/flower G249 G164
Osa03LNT0241500.3 3 QFll3 Morphological trait Culm/leaf G249 RG418
Osa03LNT0241500.3 3 QSn3 Morphological trait Culm/leaf G249 RG418
Osa03LNT0241500.3 3 nan Resistance or Tolerance Drought tolerance R1618 G164
Osa03LNT0241500.3 3 Qbp1 Resistance or Tolerance Insect resistance R1925 R2443
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