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

>Osa11LNT0104300.3

GATGCTAATAGCACAAAAAGTTTCTTATAAACACCAGGTGCTTCAATTGCATCCAGTTTGAAGAATTTGGCTGAACATAAGTACGTGCTAGCCAGATCTCTCACGAGTCACAACAGTGATATGCAAAGTCAAATTGATGTGTATACAGTGGCTAGTAGCTTCAGTTTCGCAGCAGTGACATGAACCGAGTTTAAAACTATAATATACTCTTAGTCATAACAACAGCATTGGATAATTCTGCCATGTTATGAGCCGTCTGATAGTGAGGCATGAAACATAGAATTGGTACCAGGCTTGCGATTATAACCGACAAAAAACAAACCTCCCACAACCTTTCCTGCTATTGGTGTGAAGTGTCTCCGCCTTTCCTCTGCCATTGTTGCCTAGCAGGTTGCCCTTGCCCATGTGGTTGTCTTCTTGAAGCATGAGATCGATGTCTCCTTCGATGACCTGAACTGCTGTTGTGCTTGGTGGTACCACCAGTGCTGTTTGTCTGGTTGAGTGGCTCCGTTCCTGAGGTTGAAGTTGTGGTGTCTTCACAAGAATCATCAACGGTGTCTCCTTCGGAAGCAGTAGGCGCGCTGGGAGGACGAGGGATGTACATTCCAGGCTGTATGGAAAGGTCTTTCTTTGGTTCAATCAGGCCATTTCGTTCTTGTTGTAGATTGAACAGCGATGCGAACTTTTCTTGACGGATCTTCTCTGACTCAGAATGAAGTACTTCTTTTTCATCTTCGTCCAGATCAATCGATAAAGATGCCAGTTGAGAAGTATTTGCACCTAGCAGATCACGAACATGCTCAATATCCTTCTCATCAAACACTTTGCGGCAAACTGGACATAGTCCTTTGTGCTGACTTACATTGTGATGCTTAGCTGAGCTTCAGTAGTTGCTGCTGTACTACTCTTCTTCGAGTCAGTATCATCATTCTGTAGCCATTCCCACCATCTCATAATGCAGTCACTGTGGAAGCAGTGGTAGCACGACATCAACTTCATAAATGGCAAAGCAGAACCATCATTCTCTTTGACTAAAGGATATAGACAAAGTGGGCAATCCCCAGCTGGATGATTCATATTTGAGAGCATCTCCACAGCTTCCTCACACAGCGTCACAAGCATCGGGTAGCAGGAAAGTTCTCTTGCCTTGTTCTGGATGCTGCTAATAAGATACACCTGTCGATTCTCATCAAGGCCCTTACTTTCCACGGCATAAACATGAGGAGGTGCTTTTGGATACTGAGAAGATGCTTTAATTCCAAGAAATAGCTCCACGAACTGCTGCGAGGAGTCGTCGGCGGTGCGGGGGCGGACGTGGACGACGAGGTGGGGAGGGAAGCCGCGCACCACGCGGCAGTCGTCGCCGTACACCGACGCCACCGCCTCCACCTCCTGCCGCACCTCCTCCTCCGCCTCCGCCGCCGCCGCCATTGCCTTCGGTGAAGATTTTCCTTTTTTCTTTTTCCTTTTTCTTTTTTTTTTC

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.958274
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa11LNT0104300.3 11 21051511 T G
Osa11LNT0104300.3 11 21051157 A G
Osa11LNT0104300.3 11 21051533 G C
Osa11LNT0104300.3 11 21051571 T C
Osa11LNT0104300.3 11 21051666 A G
Osa11LNT0104300.3 11 21051852 T C
Osa11LNT0104300.3 11 21052254 T C
Osa11LNT0104300.3 11 21052669 T C
Osa11LNT0104300.3 11 21052674 A G
Osa11LNT0104300.3 11 21052681 A C
Osa11LNT0104300.3 11 21053434 A G
Osa11LNT0104300.3 11 21053584 C T
Osa11LNT0104300.3 11 21053690 T G
Osa11LNT0104300.3 11 21053815 A G
Osa11LNT0104300.3 11 21054832 A G
Osa11LNT0104300.3 11 21055086 G A
Osa11LNT0104300.3 11 21055509 G A
Osa11LNT0104300.3 11 21055548 T C
Osa11LNT0104300.3 11 21051572 A G
Osa11LNT0104300.3 11 21054979 T C
Osa11LNT0104300.3 11 21055539 T C
Osa11LNT0104300.3 11 21055664 C T
Osa11LNT0104300.3 11 21055721 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
Osa11LNT0104300.3 osa-miR5813 Translation 5.0 21.653 1 22
Osa11LNT0104300.3 osa-miR159c Cleavage 4.5 20.133 1 21
Osa11LNT0104300.3 osa-miR159d Cleavage 4.5 20.133 1 21
Osa11LNT0104300.3 osa-miR159e Cleavage 4.5 20.133 1 21
Osa11LNT0104300.3 osa-miR1436 Cleavage 3.5 17.035 1 21
Osa11LNT0104300.3 osa-miR1857-3p Cleavage 3.0 14.622 1 21
Osa11LNT0104300.3 osa-miR5339 Translation 4.5 19.343 1 21
Osa11LNT0104300.3 osa-miR5495 Translation 4.5 18.624 1 21
Osa11LNT0104300.3 osa-miR820a Translation 4.5 19.228 1 21
Osa11LNT0104300.3 osa-miR820b Translation 4.5 19.228 1 21
Osa11LNT0104300.3 osa-miR820c Translation 4.5 19.228 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa11LNT0104300.3 11 qBFR11 Resistance or Tolerance Blast resistance RM209 RM5349
Osa11LNT0104300.3 11 qDLR11 Resistance or Tolerance Other soil stress tolerance RM2596 RM286
Osa11LNT0104300.3 11 chs Others Others nan nan
Osa11LNT0104300.3 11 gpl11.1 Resistance or Tolerance Drought tolerance RZ537 RZ900
Osa11LNT0104300.3 11 gw11.1 Resistance or Tolerance Drought tolerance RZ537 RZ900
Osa11LNT0104300.3 11 yld11.1 Resistance or Tolerance Drought tolerance RZ537 RZ900
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