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

>Osa04LNT0278100.1

AAACAAAAAGAATCTCCCATTATTTTATTCAAATGATACATGAAAGGATAATATTTACCAGACAGGAACCGAGGTTTTCAAAGTACGAAACATGGCTGCTGATGAACAGAAGCAGTTTATTCCGTTATTCGGAACACGGAATTACAGCTAGAAGAGACGAAGTTATTCCTCTCAAAAAATAAACAGTACAAGTTTGCCATCAGATGTATGGCAAATCGCCTAGCAGCAAGCCATCAACCCTTAGTTCTTCACAGTGGTGACATGCCTCAGAAGCATCTGAATCACTTCAGGGGAGATACTTGCAGCCTGCTGCTTGAGTTGTGCGATTTTTTCCGCTGTCTCCTGCTCAAGACGCTTGACATTTGCACCAGAGTCACCGCTACTCTCTGCAACCTTCCTCTGAAATTCAGCCTCCATCTGGGCACGGTATTCAGCTATTTCCCTCTCAGCCTCCTCTTTTGCTTGCCTAAGCCTTGCCGATTTTGCAGCCCTAGCAGCATTTACTATTTGCTGAGCCTCTTGCTCTGCAGCCAACAATTGCTGGATTCCACTTTGGCGTCTGTTTGCGTCCATCTTTGTGCTGCTGCGAGAGAGAAGACTCGAATCGAACCC

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.873556
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa04LNT0278100.1 4 30375833 T A
Osa04LNT0278100.1 4 30375943 T C
Osa04LNT0278100.1 4 30376113 T C
Osa04LNT0278100.1 4 30376701 A G
Osa04LNT0278100.1 4 30376914 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
Osa04LNT0278100.1 osa-miR5808 Cleavage 5.0 20.535 1 24
Osa04LNT0278100.1 osa-miR2907a Cleavage 5.0 23.035 1 22
Osa04LNT0278100.1 osa-miR2907b Cleavage 5.0 23.035 1 22
Osa04LNT0278100.1 osa-miR2907c Cleavage 5.0 23.035 1 22
Osa04LNT0278100.1 osa-miR2907d Cleavage 5.0 23.035 1 22
Osa04LNT0278100.1 osa-miR5503 Cleavage 4.0 20.632 1 22
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa04LNT0278100.1 4 OsAOX1a Resistance or Tolerance Cold tolerance R2737 R740
Osa04LNT0278100.1 4 pss4.1 Physiological trait Source activity RZ740 RZ590
Osa04LNT0278100.1 4 nan Morphological trait Panicle/flower RM303 RM348
Osa04LNT0278100.1 4 nan Morphological trait Panicle/flower RM303 RM255
Osa04LNT0278100.1 4 qPN-4b Resistance or Tolerance Drought tolerance RM317 RM255
Osa04LNT0278100.1 4 Xa2 Resistance or Tolerance Bacterial blight resistance RM317 RM349
Osa04LNT0278100.1 4 nan Morphological trait Root RM3288 RM5503
Osa04LNT0278100.1 4 rfw4a Resistance or Tolerance Drought tolerance RM349 RM1136
Osa04LNT0278100.1 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