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

>Osa04LNT0271900.1

GGGCATGACTATGACACTGAAAGAATACATCTTTGCCTCAGAAAAACGGCAAGAGTTACAAGTTTTCACTTTTCAGTCGCATTGTACATTTCTAACACCTCCCCTCAGCAACAATGCTATGGCTTCAACAACTCTTTGACCAGTACTCTGTATCAAAATAGCTTAACTAGCTACTCCATCTAAATGAACAGGAAGCGTCAACAAAATGGAGGCCGGGCACTATATCATCTGTACACTGTTTGATTACCTCACAACATCGCCTACCAATGTCAGTGTACGAGAAAGCTTACAGCAACGGGTAGCTTCTTGAGTTAAAAAGACAAAGATTAACACCACAATGGCATCCCTATGAAGAACTACGCTGACTCTCGCAACCTGGGCAATTGTGCAAGCTCTCATGGATGTAAATATCGCAATCAAGGCAGAAGTGTTGGTTGCATTTTGGACAGCGAACATGGAGGCTAGATTGACTATCAGGGTTAATAAAGCTTTGCTGGCAGCCGTAACACTTTTGTCCTCCCTTTTGACCTAGTCTATTTGGGTGCACGGAGGACACCTCATCAAATGGTTGTACAGGGAAGAGATGATGATAGGACCTTGCCAGATGTGGAGAGCTAACTAGTGTCAGCCCGCAAGTTCGACATTCTGTTGGAAGCTCACATACATTGACTTTGCATCTAGGACATATGTAACCTTCAGCCCCCGACTTTATTTTCTTGTGACAAGAGCAGATGGAGATAAGATCCTCTGCTCCTCTCTGCGGAAAACCCATCTTAATCAAATTAGCTGCAGCATACTCAGCAATTGCAGGTGGTGGAGGAGCATGTTCCAGAAGCAATTCCTTGAAATGGGACTCATCCAGTGCAACTGTGTAGGATCCGCCAGTCTCTTCACACAGATATTTGCAGATAAAAATCTCTGCAGCAAGCCCAATAACCGAACATCGTATTTTGGATTTCTTGCATTTTGCTATTGTCTCCATGATATCTCCAGGATCACAGGTATTCAGGGCCGAGTACAAAAATAATACTTCCTTGTGACCATATGAAGGAACCTGGTCTAAATAACCATGGACAAGCTCTAGAGCATTCTGCAGAGATGGTTCACCAGAACACTCAAGCTTCCCCATCAATGCTTTAATCTGTGATTCAGGACTACCTCCAATCTCTGTAAGTCGATGGGAAATCCCATCTTTCATTGTCACTATCCCCACATGACTCAAGGGATTCTGGTCAAAAAATTCCCTTATGAATACCTCAGCATATTTTGCAACAACAGCCATTCGACTAGGTCGATAATCCATCTCTGAAGCCGGGAGAGATCGATGACGATGTAGAGGTAGCGGATGAGGCCCTTCTGGATGCGGGCGGCGGCGGAGGCGGCAGAGCGGAGGAGAAGGCGGCGGCGGTACTGCGCGTGGACGAGGGTCTTGGTGTCGATCGGGCGGAGGAGGCCCGACTCGTCCTCCTGCAGCGCCTCCCATGACCGGTCGTCCGCGTACGCGCGCTCCCAGGCCTCGAGGACGCGCCCCTCGCCGGACTCCTCCTCCTCCTCGTCGTCGTCGTCCTCGTGGTTGCGCCGCCGGGCCGATGCCGTGTAGGGCGCGTTGAACCCCCCGCCGCCGCCGCCGACGCCGTACATGGTGGAGGCGGCGGCGAGGCGGAGTGGGAGCAGAGGAGGAAGGAGAGGCGAGGTCGGGGACCGGGGAGATGGGCCAGG

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.956854
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa04LNT0271900.1 4 25435630 G A
Osa04LNT0271900.1 4 25437295 A C
Osa04LNT0271900.1 4 25437364 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
Osa04LNT0271900.1 osa-miR397a Translation 5.0 12.367 1 21
Osa04LNT0271900.1 osa-miR395w Translation 4.5 20.524 1 22
Osa04LNT0271900.1 osa-miR5159 Cleavage 4.5 21.715 1 24
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa04LNT0271900.1 4 qChla4-1 Morphological trait Shoot/Seedling C2807 RM241
Osa04LNT0271900.1 4 qChlab4-1 Morphological trait Shoot/Seedling C2807 RM241
Osa04LNT0271900.1 4 pss4.1 Physiological trait Source activity RZ740 RZ590
Osa04LNT0271900.1 4 qPH1-4-1 Morphological trait Dwarf RM241 C2807
Osa04LNT0271900.1 4 nan Resistance or Tolerance Other soil stress tolerance RM5586 RM3916
Osa04LNT0271900.1 4 gpp4 Morphological trait Seed RZ569 RZ565
Osa04LNT0271900.1 4 nan Morphological trait Culm/leaf RM3785 RM1388
Osa04LNT0271900.1 4 nan Morphological trait Culm/leaf RM3785 RM1388
Osa04LNT0271900.1 4 nan Morphological trait Culm/leaf RM3785 RM1388
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