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

>Osa09LNT0451300.1

AATTAGGAGTAAGCATTTCCTCCTGTTAGATAACTTGAGCACTATTCAGTTTTGATAGTGATACAACTAGAGGGGAGTGCTCCCTAACTAAACAGACTGAAATTAGCTGCTGATTGATTAGTCAAAGCTAGCTACTGCCAACGCATTCTACCACGAACGACTTAACAAGGCACACAATTTACAGCAGCCACTACCAACTATGTACAAGGCAAAGGACGTGTGTTCCATAAAAAAACTAACTAGAACTACTACTAGTAGGATTAGGATGGAGGAGTGTCGTCCCAGCCCATGAGCATGTTGGTGACTCCATCAACAATCTTGCTCCGCAATGAAGAATGATCTCCCTCACCAAGGTGCACCCTGTAAACCTCCCATTCCCTATCACCCACCACATGCCGACCAATCTCAGCCAAGAAGATCCGTTTGTGAAGCTTCTTGAGAGCAAGGGTGATGTCGTAGAACACCAGCGGTCTACCCTTGCCCGACACCTCCACTGGGTTAGCCACCAGCAGTTCCGTGTCAGGGCCTCTGTTTACCAATGCCACGCGCAGCGGACGGTGGAGCTCTGTCCTCAGCCGACAACACAGCGCTCTTTGCTTGTGCTGGTCAACGATCTTCTTCCCATCTGATTGCACAGCAAACAAATCTACCTCACAGCTCCCATTCTGGCTGGCATAGAATCGTCCATACGAAATCTGGATGTTACAGTCCTTGAGTGTTCTCATGATGTCATATACGAGGCCTTTATGGTCACCACACTGGATCTGAATAAGAGTGTGCGCAGGACTAAGAGAGTTGTCCATTGCAACTGACAAACCACCACAAGACCTGGATTGCTCCTCGACAACCTCTACGTTAAACATCTCTTCCACCGCAGAATGTGGCAACAAAGTAGAAGCTTGGAGGCAAGAGGACATTTCCTCCGTAGCAGATTCTATTTCACAGCTTGTCAAGGAGTCACCTAAAACACTCTGAAGTTTGTCATAGGTCTCTTCCCTTCTGCTCTTTGTATGTAGAAGTTCCCTAGCATCTGTGATGAAGAAAAGATCCAGCACTCTCCCATCAGGTGTGGTGGAGACCTTCACTCTACGAATTGTGAGTTCCAGTTCGCACAGCACTCGTGTCACGTCATGCAAGAGGCCCATACGGTCGTAGCAGAAGAATTTGAGCAAGAAGATGTTGGGAGAGGGGGCAGGTGCATCGTGGTCGTGGAGGTGGAGACCAGCGGCGGCGAGGTGGTGGTTGTCGAGGCCGAATGGCGCGGCGACAGGGCAGAGCTGGATCAACCTGTCCTTGAGGAGGTCCCATCTCATTGCCATGGCGCGGCCGGGCCTTGCAACCACCCACAGCACGATGTAGCACCACCTCCCATCAGTGCTCATGTCTACAATCCAATCCAATCCAATCTCTTCTCTTGGACTGCTATAATGAGGAAAGAAGAGGGAATACTAGAGGAATGTTATATATTTTACCTCCCTTGACGATGTTGAGGCCGAAGAGGAGGACAAGGCGGCAGAGGTCGCAGCCGAGGCCCGTCTTGTCGGGGCAGCTAATGGTCACCACGGTTGGCTCGCCGGCGACATCGCCGTGCCGGACTTGCACCACCTCGTCGCTGGGATTCGGAATCCCCATCCAATTCTCAATCTCCACTCACTCACTAATAGCTAGCTACTTGTTGTTTCGTAGGAGTACCCTAATAATAGATGGAAATTAATCTTGGATTGGAGGACGCTCGCATCAAATCTAACAAAGGATTTGATTGATGTGTTGCTAATTGCGATTGCTTTTGCTTGCTCCAAAGTCCGAACAAGGAGGAGGTCGTTTGGTCGTTTGGGCGGCGGCGGCGGGTAGAGCGGAGTCAAGAGCAAGAGCGAAGCGAGACGAGGAATCTTC

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.727176
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa09LNT0451300.1 9 22794610 C A
Osa09LNT0451300.1 9 22795796 A G
Osa09LNT0451300.1 9 22795969 T C
Osa09LNT0451300.1 9 22796128 T C
Osa09LNT0451300.1 9 22796599 T G
Osa09LNT0451300.1 9 22795432 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
Osa09LNT0451300.1 osa-miR166l-5p Translation 4.5 18.111 1 21
Osa09LNT0451300.1 osa-miR530-5p Translation 5.0 20.006 1 20
Osa09LNT0451300.1 osa-miR5146 Translation 4.0 20.338 1 24
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa09LNT0451300.1 9 qTN-9-2 Morphological trait Culm/leaf RM215 RZ404
Osa09LNT0451300.1 9 nan Morphological trait Root RM215 RM205
Osa09LNT0451300.1 9 nan Morphological trait Root RG667 RZ404
Osa09LNT0451300.1 9 yldp9.1 Morphological trait Seed RM242 RM205
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
Osa09LNT0451300.1 9 22795074 Lemma-and-palea-pubescence 9.635271072 -