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

>Osa03LNT0208600.3

CAAACAAACTGGCAATTTTATAAGAGAATAAAAGGCACATATCCATTGCACTAAATTCTTGTAAGACCATCCAAGTGCTAATGCCTCCATTGAATCTATCGCTGCTTCTTGACAAGTACAGACTCGCGACTCCATTATTTGTTGAATATCCCCACAACCCAACACACTCATATGTAAATCAGATAACCACACTTATTCCAAAGCTTAATTTCTCTTGACAATTGCAATATAACAAGAATGATAGGAGTGACATGTGTAGCAAACACCTACCGGGTGTCAGGATTTGTCCTTGACATGACCAGGTTTTTGGCAGCATGTCATGTGGCTTATCCTGAAATAGTGTGTTGGTTCCCTCTGTTAGCTGATAAACAGGAGCCTTGGGCTTCGGCTGCTCAATAACAATGGCCTGTAAGGTGAGGACCATTGCAACCACTCAGGCTGCGTTCTGGAGCATGCATCTTCTCACCTTAGCTGGGTTGATAACACTTGCCTTGATCGAGTTCTCATACTTAATGTTCATCGCATTGTAACTGACTTTACACTCACTGTCCTCGATCTTCTGAACCACCACTTCCCCTCCAATTCAGCATTATGGGCAAGCAGTGATGCAGGAGCAACCAAAGCCTTCACTTCATTATCTCCTCTGGTAATTAGCACTGATGAGCTGTTGAGTTCCATTGGCAGATCATGGCCTTTGAAAACAACAAAATAAAGGGAGTGAACACATAGGCGCTTCAAAAATTTAGAATAAAGTGCCACACCAGATGATCAAGAATTAGATCATATACGAAATAGTAAGAATTAGATCATAGCAATTAAGTAGTCCATTCAGATTATGAGTTTGGCAACAATGACTTCTGATGCTCAGTGCTACAACAACCATCTTGTTGTAGCCATACAAAGAGAACTCCTACAATGTCTTCTGTTCTTCAAGCAATCCATTTTTTCAATCTTCCAGATTGGCTGGTCTTCGATGCAGAGGCAGTAAGCAAGGAGCTCAAGACAGCAACAGGGGGCTGCGGGCGAAGACAATCTTTCGGAGCAACTGGGCGTCCCTGTACCTTACCAACAATCTGCTACTACATCACCAATAGAAATAGAGGGTAGGTTAATGAAGAAGAATGCAAGAAATCAGGCTTCCGTACAAAGCCTGATGGCAGAGGTTGGATGCGCATGTAGCTGCTGAGATGCAGATATCTGCCTTGCTTGGCTGAACTGTGTCGATCCCTTTGCGTCGCACCACCACCAGATCGTGTGCTGCGCCGCCGGATCAACCAACGCCGTCAACCATGAGCCCTAGGCCACCTAATCACAGGCATCCATCGATCCGGAAATGAAGATGGAGAGGGAGAGGGAGGGGCTGTGCCGGGCGTAGAGGGAGAAGAGTAGAGGGCGGCTCCAGGCTTCCCCCGCTTCAGGGCGGCCGGATCTGCCGGCGAGGAGGCCGGAGTCACCGGATCCGACAGTCCCGGCCTCCTCGTTGGCGGATGCGGCGGCGGGAGCGAAAGGATGGCGATGGCAGGACGACGGCACGGCGACAGCAGCGGCTCGCAGTAGGGAGTGCGCGGGGGAGGTCGCCAACTGCGGGAAGAAGAGGATGAGGGGGACGGCAAGCAGCGGCGGCGGCCGTCGCTTGGCAGGAGAGAGAGCGGAGAGAGAGGAGGAGAGGCAGAGGAAT

Coding Potentia
Explanation CPC Score
noncoding -1.21404
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa03LNT0208600.3 3 10242455 A T
Osa03LNT0208600.3 3 10242798 A C
Osa03LNT0208600.3 3 10242851 A G
Osa03LNT0208600.3 3 10244300 A C
Osa03LNT0208600.3 3 10244494 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
Osa03LNT0208600.3 osa-miR5533 Translation 5.0 22.082 1 21
Osa03LNT0208600.3 osa-miR5836 Cleavage 4.0 20.971 1 21
Osa03LNT0208600.3 osa-miR531b Translation 4.5 24.697 1 20
Osa03LNT0208600.3 osa-miR1851 Translation 3.5 16.229 1 21
Osa03LNT0208600.3 osa-miR2096-5p Cleavage 5.0 23.07 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa03LNT0208600.3 3 nan Morphological trait Seed RM251 RM554
Osa03LNT0208600.3 3 nan Morphological trait Seed RM251 RM554
Osa03LNT0208600.3 3 qLVG3 Resistance or Tolerance Cold tolerance RM251 RM282
Osa03LNT0208600.3 3 ccs3 Physiological trait Source activity RM282 RM251
Osa03LNT0208600.3 3 dcf3 Physiological trait Source activity RM282 RM251
Osa03LNT0208600.3 3 qGL3-1 Physiological trait Eating quality nan nan
Osa03LNT0208600.3 3 qOE3-1 Physiological trait Eating quality nan nan
Osa03LNT0208600.3 3 qTA3 Physiological trait Eating quality nan nan
Osa03LNT0208600.3 3 qBM-3 Physiological trait Source activity RG369 RG745
Osa03LNT0208600.3 3 qGY-3 Morphological trait Seed RG369 RG745
pre-miRNA
Transcript ID Pre-miRNA Identity(%) Alignment Length Pre-miRNA start Pre-miRNA end E-value Bitscore
Osa03LNT0208600.3 osa-MIR1846e 95.652 69 1 69 1.19e-25 111
GWAS
Transcript ID Chromosome Locus Trait Value Plus Minus