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

>Osa04LNT0278200.1

ACAGGTTCATCCATCCAACCAAACATACCTTATTGCTTACATAAATTTTGTACAAGGTTGAAAGCTTGCTGAAATGTTGTTATCATCAAACATAAATGGGTCACTGTATCAAGATGGTGGTCTGATACTTACATCCACAATAAAATATTGCATCAAAATTAGTACACTAAAAAACTGGTAAAGAATCCTAGGAATCTAATAGAAATGCTACAAGAAATATTCTCTCCAAGAACAACATCTGCAGGAGCTACAAAGAATTGAATGGAACATGCCAGAAATATCAACTAAAGTATCTATCAGTTGTAGGCGAAGCATCAGTGTCTATAAATCTTCCTGTAAGACTTTGTTCAAGAGTGTGGTCAGGAGGGCATCCCTTTTCTCAGCTCGTGCTTCTTCTCTCATCCTTCGTTGCTCCTCTCGCTCCATCCATGTGTGCTCCAGCATCAGTCTCTCCTGCTCTAGCTTTTGCATTGACTGACGCCATTCTTGTTCAAAAACAATCCGCTCCTGGGAACGCCTCTCCATCATCTCATGCCACTGAATATCCATGCGCTGCTGCTGCACCAGGAAATCCTGCAACAATTCATGGATGCTTGAAATGCTAGTCCTCGACTTTTCTGCCATTCGTTGCGATTGTTGCCTCTTGTCAGCAATTTTCCTCTTTCTGCTTCTTATGGGTTTCTCATCGCCACTATCTCCACTGCCATCTTCCTCATCATCAGAGTCCTCCGATGACAGGTCACCACTTGGTCGCTTTAGTTTCTTTTTAACAGATGGTCCAGATTCAGACTCAAGGAGTTGTTGTTGCATAGTTCTAGCTCGTTCAGTGAAGACTGCATGCAACTCATCAAAGAAAGGACACTGTCTACCATTTTCTGGATCAGATGTTTCTTTTCCCTTGTATCGGTTGACGAGGTTCTTCCACTTGCACTTGCATTGCTCGGCAGTGCGGCGGTAGCCGCGCTCACGGAGGCGCGCGGACACCGCCTCCCACAGCGTCTTGGCGCTGCGGCGCGCGGCGGCCGCGGCGGCGGACTCCCGCTCCATCTCCCCGCGCGCCGCGATCAGCTCCCGCGTCTCCTGCGCGCCCCACTGCGGCACCC

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.798771
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa04LNT0278200.1 4 30393881 C T
Osa04LNT0278200.1 4 30394106 C T
Osa04LNT0278200.1 4 30395458 T C
Osa04LNT0278200.1 4 30395510 A G
Osa04LNT0278200.1 4 30395635 A G
Osa04LNT0278200.1 4 30395645 T C
Osa04LNT0278200.1 4 30395389 C T
Osa04LNT0278200.1 4 30393769 G A
Osa04LNT0278200.1 4 30394434 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
Osa04LNT0278200.1 osa-miR5536 Cleavage 5.0 14.616 1 22
Osa04LNT0278200.1 osa-miR319a-3p Translation 5.0 18.78 1 21
Osa04LNT0278200.1 osa-miR171f-5p Translation 4.5 17.75 1 21
Osa04LNT0278200.1 osa-miR1853-3p Translation 4.5 8.811 1 22
Osa04LNT0278200.1 osa-miR2091-5p Translation 4.5 17.696 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa04LNT0278200.1 4 gpp4 Morphological trait Seed RZ569 RZ565
Osa04LNT0278200.1 4 OsAOX1a Resistance or Tolerance Cold tolerance R2737 R740
Osa04LNT0278200.1 4 pss4.1 Physiological trait Source activity RZ740 RZ590
Osa04LNT0278200.1 4 nan Morphological trait Panicle/flower RM303 RM348
Osa04LNT0278200.1 4 nan Morphological trait Panicle/flower RM303 RM255
Osa04LNT0278200.1 4 qPN-4b Resistance or Tolerance Drought tolerance RM317 RM255
Osa04LNT0278200.1 4 Xa2 Resistance or Tolerance Bacterial blight resistance RM317 RM349
Osa04LNT0278200.1 4 nan Morphological trait Root RM3288 RM5503
Osa04LNT0278200.1 4 rfw4a Resistance or Tolerance Drought tolerance RM349 RM1136
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