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

>Osa01LNT0006000.1

AGGGGTGTATAATTGTTCCATAGAAATTTTGACAGCTTGTGTAAAAATGAAGCCGGGCGAGCTCAGAGTTAGTGACAGCAGTAACAATAATAATAATGAACATTAATACAGTATAACCAAAAGGTAGCAGCAGACGAAGCTACTACCGTGTTTCGATCAAGTACAACGTTGTGGTATATGATGGGTTAAAATTGGCTGCAATCACTAAAATCACATGTCCATCCTGAATGTCTCAAGTCTCTCAATCGAGGATCCTCCAGCCCTGTTTTCGCAAGCTTCAGATGTCATTTGTATACACAGATTATCAGCATTGTGGTGAGGGTGATGATTGTCGCGGTTGTGAAGATAGCCGCCGCAACCGCCGATGCAGCAAGACCAGGGCGCTCTCGGGGATCTTTGTTGTAGTACTTACAGCAGTAAAGAGTTGCTGCATAGTACCAGATCAACGGACACAAGAAACCTAAAAGGAAAGAGGACCATCCTATACCACAACCAAAGCAAGGAAGTCGTCTTTCAAACATTGCCAGCCGTGGGTTTTCTTCATCTCTGAGCAATGTATACTTGCCAAGACAGCCCTGACAATGGCAAAATTGATCCGAGCCTTCCCCCATTTAATTTAGAGCAGTTCAGCAAAGAAGCACCCAGTAATCTTAATGCAATATCTCCGTTGCAGATTCCTCTGTGCCGTAGCAAGAATCAGTCATAACAACATGAAGATAAGGACATCAATGATGCAGGTTGTCTAGAATGGTCATGTTGCGGAGCAAGACGAAGCATGCGCCGCCGCCGATCGGAACAGAGGTGGAAGCAAGATTTGTGCGTTCTTGGATGGGCAACAGAGAGCAGCAGAGCCCTAGCGGTGGGATTCCCCTTGGTTGAGTGGAAGAAACTGGAGAAAGCGCGAGGCCGTTTTGTCCTCTTGCTTTCCCCTTCTTCCCCCTCTCAATCGATCGAGAGCAACAGACAAATCACTCCCAATTTTTTTTAAAAGAATTGAAAAAAAATTCAAGAGCGCACGACAGTTCACGTCTCGCCTCCTCGATTTCTTTCTTTACTTCGTCGCTCGCTTCCCTTCCAAG

Coding Potentia
Explanation CPC Score
noncoding -1.20315
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa01LNT0006000.1 1 4424096 G A
Osa01LNT0006000.1 1 4425996 C T
Osa01LNT0006000.1 1 4426240 A G
Osa01LNT0006000.1 1 4426310 A G
Osa01LNT0006000.1 1 4426699 C T
Osa01LNT0006000.1 1 4424202 A 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
Osa01LNT0006000.1 osa-miR5535 Cleavage 4.5 13.568 1 22
Osa01LNT0006000.1 osa-miR530-3p Cleavage 5.0 15.257 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa01LNT0006000.1 1 gp1a Morphological trait Panicle/flower RM1 R753
Osa01LNT0006000.1 1 nan Physiological trait Source activity RG532 RG472
Osa01LNT0006000.1 1 qFLL-1 Morphological trait Culm/leaf RZ543 RG532
Osa01LNT0006000.1 1 qFLP-1 Morphological trait Culm/leaf RZ543 RG532
Osa01LNT0006000.1 1 ph1.1 Morphological trait Dwarf RM220 RM272
Osa01LNT0006000.1 1 nan Morphological trait Root RM7383 RM243
Osa01LNT0006000.1 1 nan Morphological trait Root RM7383 RM23
Osa01LNT0006000.1 1 qPN1 Morphological trait Panicle/flower nan nan
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