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

>Osa02LNT0185400.1

AGTATGGCAAACCAATATCATATGATGCAGGTATATATAATATAATAAGATAACACTACGTTTTGCGTACTGCAGAACCAACGATACAAGATACTGATAACTAGTGAGCGGACGTTACCAAAATGGAATATGGTGGGGGTGGAAGCATTCACCCAGCATGTCTGCTGGGAAACTAAAATACCAGATAGTAGAATTATTTCTGGGACCGACTTGGCTGACTAGCGACTAGGCTTGGTGTTGTGTTCCACGTCATGAAAACCTCTTACTTCAAAAGTATGGCCTGTAGCGCATTGGACGGCGGAATCTGGGGACTCTCCCGTAACCATATGGTGGGAAATATGGGGCCCCATACGATCTATATGGGTAACCATGATAAGGATTGTATCCACGCGGTGGACGCTGCTTCATCCCAGGGACATTAGTCCTCTTTGGTGCCACCTTTATCTGACGACCATGCAGTTCAGATTCATTCAAATTCAGAGCCTCCTGAACTGCTTCTTGTTCCAGAAATTCCACATAAGCAAAACCTTTTGGCTGTCCAAACTTGTCAGTTAAGATCGTCACTCTATTGACTGTGCCACACGCTTGAAAATGCTGCTGCACTTCTTCTGGGGTACATGCATAATCAACCTATGTGTATTCAGGTGATTCTCATTGGACCAGTCGCTAAGAATCACATCACATCGTATGCAGGTTCGAGTCTCAAGCACCAAGGAGTGTACAGCTGCTTTCTAGACTTCCTTTGCTCCTTCAAGGATAACCTATCCTAGAATATTCATGTTTGTTTTTTTCCCTTTTTTCTTTTTCTTTTGCCCATGCTCTTTTTTTTTTCCTTTTTGCCCATGCTCTTTTTATTTTTTTCAGGGAATTTCTCTTTTTTTTTTCAATTCTAAGCTAATACTAAAATGCAGGCAGGTGTTCAACCAGATGCCAATTACTCGATTTGAGAAAGGCTTGATCTCAGCACTACCATTTCCAACATACACAGATCGAGCATCCACCTGCTCCTTTGCCTCAGCTGTAGACGCGCTAGGATCTCCTCCTTGCATCTCCTTGGCGACCTTGGCCTGCATGTCGCGGAGGGCCGCGGCCTCTTCCTCCATCTCCTTCAGCCTTCGCTTCATCTGGTCGAGCTCCTGCAGCTTCGCGGCGTCGTCCCCGCCGGAGGCCATGTCGACGTCCGCGCCGTCCATGTCCCCGTCCTCCGGGATCTCTTGCCCGTACACCTCGTGCTCCTCCTCGTCCATGGCGTTCGCCCCTCCCCACCTTCGTCGATCCCCAATCTGACTCG

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.87168
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa02LNT0185400.1 2 31917626 C A
Osa02LNT0185400.1 2 31918020 T G
Osa02LNT0185400.1 2 31918468 T A
Osa02LNT0185400.1 2 31919125 T G
Osa02LNT0185400.1 2 31919627 G A
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa02LNT0185400.1 osa-miR5817 Translation 4.5 7.433 1 24
Osa02LNT0185400.1 osa-miR6253 Translation 4.5 16.032 1 22
Osa02LNT0185400.1 osa-miR319a-3p Translation 4.0 11.483 1 21
Osa02LNT0185400.1 osa-miR408-5p Cleavage 4.5 12.311 1 21
Osa02LNT0185400.1 osa-miR1857-5p Cleavage 5.0 14.674 1 21
Osa02LNT0185400.1 osa-miR2104 Cleavage 5.0 18.707 1 22
Osa02LNT0185400.1 osa-miR2275c Cleavage 4.5 8.801 1 23
Osa02LNT0185400.1 osa-miR2275c Cleavage 3.5 7.434 1 23
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa02LNT0185400.1 2 Hd7 Physiological trait Flowering R3393 R2511
Osa02LNT0185400.1 2 nan Morphological trait Seed C747 C1445
Osa02LNT0185400.1 2 qLTSPS2 Physiological trait Sterility RM1385 RM240
Osa02LNT0185400.1 2 qLTSPS2 Physiological trait Sterility RM1385 RM240
Osa02LNT0185400.1 2 qCHR-2 Others Others RM263 RG520
Osa02LNT0185400.1 2 nan Physiological trait Eating quality C621 C370
Osa02LNT0185400.1 2 qDLR2-1 Resistance or Tolerance Other soil stress tolerance RM525 RM406
Osa02LNT0185400.1 2 qDLR2-1 Resistance or Tolerance Other soil stress tolerance RM525 RM406
Osa02LNT0185400.1 2 qER-2 Physiological trait Eating quality C370 C601
Osa02LNT0185400.1 2 qEL-2 Physiological trait Eating quality C370 C601
Osa02LNT0185400.1 2 qWA-2 Physiological trait Eating quality C370 C601
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