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

>Osa04LNT0276700.2

GACCATCTCCCACAAGCCGAACGCAATCTGCTCGTTCGTTCCTCGCTTCTGGGACTACGGAACTCGGAATTGAGGCATCCTGCGCAACTTGATACAAGTTTCAATCAAGAGATTCAAGATACAGGCATCGAATTACCATTACCAATGAAAGGAGCCGCAAGGTTTGTGGTGGAAAATGCAACCAGGCAAATCAAACCTGTCAATGGACTTCCGAGGTTGATGACAATTACTACTCCTCAGAAGCATGGCAAGGAAAATAATTCCAATGATTCAGTGCTCACAGAGGATGAAAACATCGAGCCACTTGTTGCTTTTAGCAGGCCACCTCCTTTGCCACCAGTTCTTGGCCCCTTGATCATGCTCTCACTTTTCAATATGTCAAGCGGCGGGGATGAAAACAAAAATTAAGCCGGAATCTGAATGAAATATGTGGTTTATCTCCGACCGCATACCGTCTCCAGAGGTGTTGTACATACTAAGTTGTAGCAATCAACTACTAGAAAAACATGATGTAGCATAAGCTATGCACTGTTTACTGCTGTAGACTTGTATGGACCAAGTAAGCTGCTGTCAAAACTCTGTTGCTAATGTTTCAGTAGCGAATTGACAACTTTCCAGGCTGCTGAAATTTGTTCAGTTGTGCTGATGTTTCAATTGCTTTATTTTCTGTGTTAGCTGTTCA

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.495129
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa04LNT0276700.2 4 29163358 A C
Osa04LNT0276700.2 4 29163450 T C
Osa04LNT0276700.2 4 29164142 A 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
Osa04LNT0276700.2 osa-miR1437b-5p Cleavage 4.5 18.82 1 21
Osa04LNT0276700.2 osa-miR444a-3p.2 Cleavage 5.0 19.895 1 21
Osa04LNT0276700.2 osa-miR444d.2 Cleavage 5.0 19.895 1 21
Osa04LNT0276700.2 osa-miR444e Cleavage 5.0 19.895 1 21
Osa04LNT0276700.2 osa-miR5485 Cleavage 5.0 17.986 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa04LNT0276700.2 4 qCTS4-3 Resistance or Tolerance Cold tolerance RM241 RM317
Osa04LNT0276700.2 4 nan Morphological trait Panicle/flower RM303 RM348
Osa04LNT0276700.2 4 nan Morphological trait Panicle/flower RM303 RM255
Osa04LNT0276700.2 4 gpp4 Morphological trait Seed RZ569 RZ565
Osa04LNT0276700.2 4 rfw4a Resistance or Tolerance Drought tolerance RM349 RM1136
Osa04LNT0276700.2 4 nan Morphological trait Root RM3288 RM5503
Osa04LNT0276700.2 4 pss4.1 Physiological trait Source activity RZ740 RZ590
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