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

>Osa05LNT0298000.3

ACTTGGAACAGATAAAAGTCACCTCAAGTGTTTATTATAAAAAATAAGATTAGTCAGCACAAAATTTTAGTTCTACTTGATGGAAGGCTGCTTACTGCCTAAAGAAGGCAGTTTAAATAAGAAAGCCAACAAATAAGTTTAGATTGCATACATCATTGCGAAGAACATTACAAGTAGCAGCCTGACCTGAGTTTCTCGAGACTCTTGTCTTTGAATCTACGACTATTTCTCTTCGTCTGACTGAGAAGGCCCATTGATGGCATCAGCAAAATACTCAACTATGTCATCATCCGGGGATTCAAAAATATCAGAGTCTGAAGGCAGGAATGGGTTGCCTGAATAGTTTTCAAGGGCTGCCAGGTCTCCCAGATTTGTCAAATCTGCTGATAAATCAGAAAGACTGAAATCCCAGATCTGCTGCCCCAAGGAAGAGCTATCACCACCATTTGGTCCTATTTGCAGAGGTCCTCCATTCCCTAAATCATCTCCAAAGGTGGCATTTACAGTAGATGCATCCACATCCATCCCTGATATATCAGGAGTGAAAGAAACATGATTGCTTGACATTGCAGATGATGGACTCACAGCCATCTCTGATGACATGGCTCCAGCATGTGCAGTTCCAGGAACTTCATTCTCTGTCATGCCATTTCCTGAGCTCATGCGAATCGGATTATAACCACCTGGTGCAGGAATTCCATTTACCACATGGCAACCAGGTGGACCACAAGATATCGAATTAACATGAGGCTGAACAGGAGCAGGTATTCCAGGTTGTTGGAGTACTGGATATCCCATAGGCAAATTGTTAACAGGCATAGGACGAATACCGTTCTGTGTTGGGGTCAACGGAACCTGCTGTGGTACTGGGTACTTCATAAGATGGTATTGGTGCTCCAATAAGTGGTTAAACAAGTTAATCTGTTTTTTCAATTTCAACCTTATGTAGTAAGCCCGAAAGAACTCAGAATTTTCTTCTTCGAGTTTCTGCCATACTAAAGTAGTGAAACCAGGTTCAATTCTTGCACGAGTAGAAAGAGTCCTAACAACTTCTCCTCTATTCATATATAGCTGTAGACAGCGTTCTATTAAATTCTGGACAAGTTCAATATCTTCACGAGAAACCCTTTTATTATCATTACTTGCAGCGGATAAGGAATCAGAATCCCCTAAAGGTGCATCAGTATTTGGCTGTTCACCCTTGATTTCATCATCACCTTGCACCAATGGATGCACCTTTGCCTTGCTCTCAACATCCTCATGAGCACTTGGTATCTTGAACGGTTGCTCTTATATTTACCAAGTGACTCTACTGACTAATACAGAGTTAACAGGCCGGTTACTAGAGATGTTCTTTATTTTGCCTTTCATAGACATTCTTACACCTCTCCAGTCTTCATTGAAGTCCATCAACTACACCATCCAAGTTCTCCTTACTAGAATTGTGCAGCTGCTACATTTCACACTGGGGACCTCACAGTGCATGGCACTAGGCTACTGGAGGCTATCTTTGCCAAATCGATCATTGCGGTAGATTCATCATGTTCAAAACTGATTAGAAATCAGTTGCATGGCCAACACTGTTCTTGGAGCCAATAGTTGGCAAGCTCCGACTTGTTGTTCCTGGAGGCTATCTTTGCCAAATCGATCATTGCGGTAGATTCATCATGTTCAAAACTGATTAGAAATCAGTTGCATGGCCAACACTGTTCTTGGAGCCAATAGTTGGCAAGCTCCGACTTGTTGTTCCTGGGAACCCTCCTTCATTGCGGCTCAAGCCCCCACGTGTTCGTCAGATTAACACTTCTCCAGGATGGATGCGGCCGAAGCAGCAGCTGGACGAACGACGGCGCACCTGCTCGCTCGCCGGGATGGATGGGGACGCGCAGGCGGCGGGCGAGCTCACGAGGAGTCGACGACGAGGTGGGAATGGACGGGGAAAAATATCCTCGGCAGCCGGCACCGCACCAGGATTTCTCCTC

Coding Potentia
Explanation CPC Score
noncoding -1.01216
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa05LNT0298000.3 5 6958684 A T
Osa05LNT0298000.3 5 6957690 A T
Osa05LNT0298000.3 5 6958569 A G
Osa05LNT0298000.3 5 6959249 C T
Osa05LNT0298000.3 5 6959534 T A
Osa05LNT0298000.3 5 6959952 G T
Osa05LNT0298000.3 5 6959979 C A
Osa05LNT0298000.3 5 6960391 T C
Osa05LNT0298000.3 5 6961494 G A
Osa05LNT0298000.3 5 6962604 A C
Osa05LNT0298000.3 5 6963317 A G
Osa05LNT0298000.3 5 6958148 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
Osa05LNT0298000.3 osa-miR5816 Cleavage 5.0 20.531 1 24
Osa05LNT0298000.3 osa-miR5816 Cleavage 5.0 9.605 1 24
Osa05LNT0298000.3 osa-miR166l-5p Cleavage 5.0 7.736 1 21
Osa05LNT0298000.3 osa-miR417 Cleavage 4.0 9.644 1 21
Osa05LNT0298000.3 osa-miR1863a Cleavage 4.5 21.616 1 24
Osa05LNT0298000.3 osa-miR1863b Cleavage 4.5 21.616 1 24
Osa05LNT0298000.3 osa-miR418 Cleavage 3.0 21.176 1 21
Osa05LNT0298000.3 osa-miR1850.2 Translation 4.5 9.763 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa05LNT0298000.3 5 An7-glum Morphological trait Panicle/flower nan nan
Osa05LNT0298000.3 5 gnp5.1 Morphological trait Panicle/flower RM194 RM249
Osa05LNT0298000.3 5 snp5.1 Morphological trait Panicle/flower RM194 RM249
Osa05LNT0298000.3 5 QKw5 Morphological trait Seed RG182 RG13
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