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

>Osa04LNT0272100.1

TTTCTAGCATTTCCCACATTCATATAGATATTAATGAATCTAGACACACATATATGTTTAGATTCATTAACATATATATGAATGTGGGCAATGCTAGAAAGTTTTATAACCTGAAACGGAGGAAGTAGCACATAGTAAGAAACTAGTTGGTCAATGGGGGGAAGATTGGTCAAATGAACTAGTCAATGCACAAAGAAAACTCTGGCTTTGTTGGCATTTACAAATTAGAATAGTGACTGCTCTACTTTTGTTGTTATAAGAGACACCATCAATTATGCTCTAATGTTTTCTTCCCTAGATGAAGCAATATAGCTTGGTAGGTGGACAACTCCAATTTATAACGGTTACAAAACGTTTTACAAAAAAGAGCTATAATGTATATATGCGAGTTCCAGTCTTCTATCCTTCATCATGTATATAATGTAGGCTTCATATTAAACTTACATGGCTACTAGTGTCCACACTAGTAGCAGACTCTGCCGGAGTTGCATCTGAATCATGGCTGCCATCTTCTTAACACGAGAAGATACGATGTGAGCAAGGAGAACTAAGAAATATTACTAATTATGGATTGTGGAATGCTAATACCTGGCGTTGCTGCTGACCCTCGGTACCTTAATTTTGGCTTAGTAGTATCTCGCACACCGACAGCGTCATTGGAGTTGGATTTTTCTTGCAAGCACCACTTTGACAGGATAAAATGTGGGTTTGGCTCTGATGACTGCGAGTCTGCAGAATCAACCACTTGCAGCTTGCTAGCTGCAGATTGCTCTTTGTGATCGAAGAGTGTACTCGAAACACGTGATGTACCCATCGAGTGACGGGCACTTGCCAGATCAAGCCACCCCGGGCGGAGAACGGAGGACAGTGAATCCATGAGGAGGAGGTAGCCGTCCACAGAGTCCATGAACCGCAGGATCTCGTCGTCGTCGCCTCGCCCAAGTCGTCCCCCCTCTGTGGCCTCGTCGACCTCTTCCACTTCCCCGACTCCAGGGACGACGGATCCCGTGATTCGCAGCTGCTCCTCCGTCGCCGCCGCCATCGTACCCGGGGATCCCGTGCAAACCCTCGCTGTCGAAGCTCACTGGTGAGTGGCGGAGGCCGAGCCGCCGCGGCGGCCGGGGAGGATGCGCGTGGGTCTCGAGTCCTCTGCTCGTGC

Coding Potentia
Explanation CPC Score
noncoding -1.23242
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa04LNT0272100.1 4 25469530 G A
Osa04LNT0272100.1 4 25469898 C A
Osa04LNT0272100.1 4 25470330 T C
Osa04LNT0272100.1 4 25470812 C T
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa04LNT0272100.1 osa-miR5792 Translation 4.0 17.229 1 24
Osa04LNT0272100.1 osa-miR171i-5p Cleavage 3.0 16.965 1 21
Osa04LNT0272100.1 osa-miR535-5p Cleavage 4.5 11.088 1 21
Osa04LNT0272100.1 osa-miR1853-3p Translation 5.0 18.004 1 22
Osa04LNT0272100.1 osa-miR1865-3p Translation 5.0 14.593 1 24
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa04LNT0272100.1 4 qChla4-1 Morphological trait Shoot/Seedling C2807 RM241
Osa04LNT0272100.1 4 qChlab4-1 Morphological trait Shoot/Seedling C2807 RM241
Osa04LNT0272100.1 4 pss4.1 Physiological trait Source activity RZ740 RZ590
Osa04LNT0272100.1 4 qPH1-4-1 Morphological trait Dwarf RM241 C2807
Osa04LNT0272100.1 4 nan Resistance or Tolerance Other soil stress tolerance RM5586 RM3916
Osa04LNT0272100.1 4 gpp4 Morphological trait Seed RZ569 RZ565
Osa04LNT0272100.1 4 nan Morphological trait Culm/leaf RM3785 RM1388
Osa04LNT0272100.1 4 nan Morphological trait Culm/leaf RM3785 RM1388
Osa04LNT0272100.1 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