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

>Osa04LNT0274900.1

GATCACATGTAGTTCTATTACTATCTTTTAGACAACACTCAGACGAGGTTATTAAGAATGAATTGAGTGCATCCAATCTGCTTACAAGGCCGTCTGAACTTCCAGGAGGAGTGCAATCCAATAATAAGCCAGTACAATCCCCAAATAACATTGCTGCATTGACAGGGGACTGAATGATGAAAATTCTAGATCATGAGAAACATGACCTGCTGGTGAATGGAAATGGGGTATCCCCAGTTCGAAAAATGCCATATTGGTGACGCACCATATGCTGTTACGATCTGCCCATGTTAAGGTGATACAGTGATGACCTCCACATCCTGCATGCTAGAATTCCTGACAGAATACTGGAATGTCCATCCGTGGCATGCCCCAGCATGCACTCCTTTCTTGTTAATTGCAAATACAGCACCAACAAAGTCCGGGTACTTGCGGGCAATTCTTAATATAGCATCCATGGCAGCATCCCGAGGCTCCATCCCTCGTCGCATGCTCTCTACTACCTGATAACACGGAAGGAAGCGCATCATAATATCACCATCACCAGTTGCTCCACATGCACCAACTTCATCATCAGCATATGCAGAAGATCCTGGTATTGGTCCATCACCTACCCTTCCTGGAATTTTGAATGTAGCACCATTGGTCGATGTGCCAGCCGCTATGCGACCCATCTTGTCAATCACAGCCATAGAGATTGTATCATGGTTGTGGCGATTAACGATTTTTAGACGGGAGTTCATTGGCTCCAGTAAATTATTAGGTTCAAATAATCCTTGACAAATGTCCCCCTGAGTCCGCTCTAGCACACGTTTGGCAGAGGCCTTAGACTCCCCTGATGGTACATCAATAGCATTGTACGGGCCACAGCTACCAGCAGGAACAACATTTTTCCAGAAGTTAGGTTGACAATGGTTCTGTCTCCAAATTGTCCATTTTCCGATAGACTCCGGTGAGCTCAGATCAGCTGGCCCCACAAGTCCCATTGAAATCGCAAAGGATGTTGCCTTCTCTCCAACAAGAAGAGTATGTTCAGTATGGTCCATAACCAACTTTGCCGCTCTGATTCCATCCTTTACATATCTCATGGCAGCGACAGCTCCGATTTCCATTGTGGTCTGCCAATTTTCCCATCCATGATGAGAGCATCTAATGTAGTTTCACCATTCTCATCTGGGCTTCCACCTGGGCCAACTGTGCCATCACAGCGGAGCACCTCGCAGGCGGAGCAGCCGGCGACGACGGCATCCACGGCCGAACAACCTGCGCCGCCACTGGCTGACACCACCTCCCAGGCCGCCCTGACCGCCTCCCGGAAAGGCCAGGTGCTCACCACCACCGGAAAAATCCCTCCCCCTTCCTCCGCGCCTCCGCCGTCATCAGCCACCGCCAAGCACCAGCTGAACCGTAGCAGTAGGAACCCTAGGAGAAGAAGCCGCGCGTAGCTCCTCCGTGACCTTCCCATGGAAAGCT

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.73641
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa04LNT0274900.1 4 27495197 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
Osa04LNT0274900.1 osa-miR5792 Cleavage 4.0 12.133 1 24
Osa04LNT0274900.1 osa-miR6253 Cleavage 5.0 14.101 1 22
Osa04LNT0274900.1 osa-miR1853-3p Cleavage 4.5 17.54 1 22
Osa04LNT0274900.1 osa-miR166j-5p Cleavage 5.0 21.552 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa04LNT0274900.1 4 nan Resistance or Tolerance Other soil stress tolerance RM5586 RM3916
Osa04LNT0274900.1 4 rfw4a Resistance or Tolerance Drought tolerance RM349 RM1136
Osa04LNT0274900.1 4 pss4.1 Physiological trait Source activity RZ740 RZ590
Osa04LNT0274900.1 4 gpp4 Morphological trait Seed RZ569 RZ565
Osa04LNT0274900.1 4 qCTS4-3 Resistance or Tolerance Cold tolerance RM241 RM317
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