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

>Osa04LNT0275800.1

GTTGAGAAGACAGCATGAAAATGTGGTAGGCCGGAAGCAAGAAGAGAACTTCCAGCAGCAACCCGGTTTGTTAAAATTTTGAAGCCAACTCATTAGTCGGAAACCAGAGAATATGGATCAAAACACATGATACAGACGAGATGGTGAGCACGGTGACCATGCAGATGAAATAAAACTTGGATGGGCTTTGTACGAACATGGAGGCTCAGATGAAGGAATTGAGAATTTGAGATGAGGATTTTTGTGCTGTGCCGTTATAAATTTCTTGCCAGAATTTGGGGGCAGAAGAGATGAGGGTTGTTCTGTCCTGTGTTCAAGCACAGAGTTTACCCACTGGCTGGGTGAAGAACCTGGATGCCATGGTTACTTGAACACCACCAGAATACAGTAGTATGAAATGCGGTTCTACATTATGGGCTCTGCTTCTACCTAAAGGATTAAGGTACTGTTTCATTTTGGTGATGGGGGGCATGTACAATGACTGAAAGTAGTCAGCTGAACGTGCAATAGGAAAACTATTACTACCTCCGTCCTAAAATGTAGCTATTTCTAGCACAGTACTTTGTCCCAAAATGAAGTTATTTTTCTACCTACCTTCTCCTCTCAACCAATCACAAGCATTCTTTTTCACCTATTTTCTCTTTTCAACTAATCACACACCTTTTTCAATCATTCTCACCTACTTTCTTAATACCCGTGCCAACCTTAAAAATGCTTACATTTTGGGACGGAGGAAGTAATTGATGCACGGGTTGTACATAACTATATATTATGCTGTATTCGCAATGAAGTTTATGAAATAGTATTGCCACTAGGCATTAGTAGCTTGCTCAACGGTGCACGTACACTTTAAAAGGTTTTGTGTGACGCGCTTGCAGCCACGTTGAAACAACAAAGTACGTCGTACATACAGCATAATGATTTGGTCCCAGTTTGGAGTTCTGTTTCTATTGAATCTGTACCGATCCCAATCGTAGATGCACCTGCTTGAATGCTGCGTGCATCCATGGATGATGGATCCGCCTTGATTCCTCAAATCAGGCGTCAACTTGACCGTGCGCTGATCAGCCGATCACCGAATCCATCCACAGGACGCACAATCCGCTGTACCGCACGTAGCACGTAGGTAGGCGGCCGCCGGCCGGACGGACGGTGGAGGCGAGCAACTAACCGGCCAACCGGTGCCGGCGGCACATCAAGGCGTCGGTGCGGCCGGGCAGACAGAGAGGGGATATCATGGGCGGGCCCGGCGCGACGAGCGAGAGCCGAGCCCGAGAGGCATACGCACCGCGTCAGATGTAAAGCCCAACTGAGAAAGAAAGCTCGGTGGAAGCGCT

Coding Potentia
Explanation CPC Score
noncoding -1.20263
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa04LNT0275800.1 4 28174817 T C
Osa04LNT0275800.1 4 28174828 T G
Osa04LNT0275800.1 4 28174843 G A
Osa04LNT0275800.1 4 28175002 A 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
Osa04LNT0275800.1 osa-miR5529 Cleavage 4.5 16.813 1 21
Osa04LNT0275800.1 osa-miR164d Cleavage 5.0 13.387 1 21
Osa04LNT0275800.1 osa-miR164e Cleavage 5.0 13.387 1 21
Osa04LNT0275800.1 osa-miR2871a-3p Cleavage 4.5 17.871 1 21
Osa04LNT0275800.1 osa-miR2871a-3p Cleavage 5.0 15.748 1 21
Osa04LNT0275800.1 osa-miR2871b Cleavage 4.5 17.871 1 21
Osa04LNT0275800.1 osa-miR2871b Cleavage 5.0 15.748 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa04LNT0275800.1 4 qCTS4-3 Resistance or Tolerance Cold tolerance RM241 RM317
Osa04LNT0275800.1 4 nan Resistance or Tolerance Other soil stress tolerance RM5586 RM3916
Osa04LNT0275800.1 4 pss4.1 Physiological trait Source activity RZ740 RZ590
Osa04LNT0275800.1 4 nan Morphological trait Root RM3288 RM5503
Osa04LNT0275800.1 4 rfw4a Resistance or Tolerance Drought tolerance RM349 RM1136
Osa04LNT0275800.1 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