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

>Osa11LNT0094900.2

CTCGATGAACAACACACCATTTTTGATAATTCTATCTATCTCTTCACGGCGGTATCCAGGATGAACGCCTTTAAACAGTATCAAGGCTTGAATTAGTGATGATGTGCATTCCACGTACGGGTAATCCACAATTATGTTCCGGAAACTCTCGGAAGGGTTGATGAACTCCACCCATGGAGTTGTTCTCTTAGATTCTGCAGAGGACAAAGTGCCATCCTTGTTCACATATGAAAGTAGGCAGTCAATAGCATCATACAACCTTTGTTCTTGAATTGGATCTCCTACTTGGGTTGGTGGAATCTTTGATAACAACAACACCGCCTTAAGGCATTCGGCAAGAGTATCCGCAATAGGCCATCCATTTTCTCCATTTGATAATGTCCATGAACCTTTTGACCTTTCACGGTAATATCTTTTGTAATTAGGACAATTCTTGGTTACCTGCGCATTCTTTATAAAATCATGAGCTTTCTTGATAGTTTCACTAAATTCTTGGGTAAGGCCGGTTGAGCAGTAGGCCTGAACTATAAGGGCAGTATCCCAGCACCGGCTACCAACGTACACCTTTGACTTCATTCCATCTTCTGCAAGCCATAGGAAATCATGAATCCTTGGAACGTGTCGTCTGAATGCATTGGAGTTCGGATTTTCTATCCAGCAGCAAATCATATTTAATACCTTGTTAATTGGGCATAAACCCACATAATTGCTGTTTTCATCTTCATAGTGAATATGATCCATGAGGTTGGTCAAAGCTCTTTTTCTTAGCTTGTTCATTGGCCACATATTAAATAGTGGTTCCATAAATTTATGTAAAGAAGCCATAGCAATGTTTTGGAACCACGAAGGAGGATAAATAATGTCGTCCTTGCAACAAGAAATGCGAGCATTGTTCCAATTGATCTTGTTGTATGGTACATCATAGAGCTCTTCTCTTAGTGCCAGTATAGTTGGAGTTATTGGCCCAATAAATCTTTTTGCATATATATAAGACATTGGCATATAAACCATCCGGCAAAAGCACCAAAATCTTCCTGGATGAATGGGAAGAAAATGTGGAAGCAACCATAGTTCTGGAATAATTGGATTGTTCCCTGACCAATCGTAAACACCAATTACCGAGAGATATATCTTTGCCCATTGTGGTGCTACAGTTGCACTGCCATGAGACAGAATCCAGGCACGCCCTTTTGATAATCCATCATTGTGTTCATCCAGTACCTCCCCTAAGAGCCTTAAGGTAGCATAGTTAACACATGAGCCAAACATGGAGCTTGGGCCTAAAGTATGTGTACTCCAACCCCCATCTTCATTCTGAATGTTGTAGATGTAGCGGCATATCTCACGTATATGCTCAGATGATAAGACATCGTTTAGTGACTTAGTCACATGTAAGGCAAATATCATGAGCGGCAGAATGAACAAAATCCCGCTGTAACCACCAGGCCAATACCCATCTGGTGCTTGCAAAGAGGAATATTGATCAAGAACACGTCTTAAAGACGTTAATAGAACTTCTTCTGTGACTTCTGAACTGTCTTTAAGATTGCTTACTTCATGTTTACTGTAAACTTGGTTCTCTTTTGCAAACCGTATAGTAGTATATACGTTCCTGCATCCTCATCAGGAGGTCGCTGCACTCCCTCTGTGTGAAGCGGTTGCGGGTGAAGTCGCGGCGGAGCCTCTCGACCACGGCGTGCTCCTCCGGCGAGCCGCCGTTGGGGTCGAACTCCCACGTCTCCCGGCCGAGGAAGCCGTTGCTGGAGCGGAGCAGTGGGTTGCTTGCCCCCTCACCAAACTTTAGCTTCCACATCGTATATTGTTTAGCTTCCTGTTGGTGAA

Coding Potentia
Explanation CPC Score
noncoding -1.34777
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa11LNT0094900.2 11 10356469 T C
Osa11LNT0094900.2 11 10356592 C A
Osa11LNT0094900.2 11 10356865 C T
Osa11LNT0094900.2 11 10356875 T A
Osa11LNT0094900.2 11 10356998 C T
Osa11LNT0094900.2 11 10357135 G C
Osa11LNT0094900.2 11 10357277 T C
Osa11LNT0094900.2 11 10357743 G A
Osa11LNT0094900.2 11 10358229 T C
Osa11LNT0094900.2 11 10358345 C G
Osa11LNT0094900.2 11 10359000 C T
Osa11LNT0094900.2 11 10359820 G A
Osa11LNT0094900.2 11 10359882 A C
Osa11LNT0094900.2 11 10360110 A G
Osa11LNT0094900.2 11 10360276 T C
Osa11LNT0094900.2 11 10360522 A G
Osa11LNT0094900.2 11 10360579 A G
Osa11LNT0094900.2 11 10361013 A G
Osa11LNT0094900.2 11 10361161 A G
Osa11LNT0094900.2 11 10361691 C A
Osa11LNT0094900.2 11 10361712 A G
Osa11LNT0094900.2 11 10362260 T C
Osa11LNT0094900.2 11 10363305 G A
Osa11LNT0094900.2 11 10363495 A T
Osa11LNT0094900.2 11 10363540 A G
Osa11LNT0094900.2 11 10363844 G A
Osa11LNT0094900.2 11 10364077 G A
Osa11LNT0094900.2 11 10359400 T A
Osa11LNT0094900.2 11 10365265 A G
Osa11LNT0094900.2 11 10366737 C A
Osa11LNT0094900.2 11 10367723 T C
Osa11LNT0094900.2 11 10367963 T C
Osa11LNT0094900.2 11 10367984 T G
Osa11LNT0094900.2 11 10368354 T G
Osa11LNT0094900.2 11 10368480 T G
Osa11LNT0094900.2 11 10368883 T A
Osa11LNT0094900.2 11 10370127 T C
Osa11LNT0094900.2 11 10370217 A G
Osa11LNT0094900.2 11 10370223 A T
Osa11LNT0094900.2 11 10370414 T A
Osa11LNT0094900.2 11 10370489 G A
Osa11LNT0094900.2 11 10370801 T C
Osa11LNT0094900.2 11 10370894 A G
Osa11LNT0094900.2 11 10370899 C A
Osa11LNT0094900.2 11 10370972 C G
Osa11LNT0094900.2 11 10371093 A G
Osa11LNT0094900.2 11 10368655 T C
Osa11LNT0094900.2 11 10371159 C T
Osa11LNT0094900.2 11 10371426 C G
Osa11LNT0094900.2 11 10372771 A C
Osa11LNT0094900.2 11 10373493 T C
Osa11LNT0094900.2 11 10373530 A G
Osa11LNT0094900.2 11 10373556 T C
Osa11LNT0094900.2 11 10373587 A G
Osa11LNT0094900.2 11 10373667 T G
Osa11LNT0094900.2 11 10374006 T G
Osa11LNT0094900.2 11 10374196 A G
Osa11LNT0094900.2 11 10374384 A G
Osa11LNT0094900.2 11 10375030 A C
Osa11LNT0094900.2 11 10375297 C G
Osa11LNT0094900.2 11 10375562 T C
Osa11LNT0094900.2 11 10375958 T A
Osa11LNT0094900.2 11 10376092 T C
Osa11LNT0094900.2 11 10376163 A G
Osa11LNT0094900.2 11 10376167 T C
Osa11LNT0094900.2 11 10374980 A G
Osa11LNT0094900.2 11 10364682 G A
Osa11LNT0094900.2 11 10376317 A T
Osa11LNT0094900.2 11 10376546 C T
Osa11LNT0094900.2 11 10358249 A G
Osa11LNT0094900.2 11 10359097 A G
Osa11LNT0094900.2 11 10364165 A G
Osa11LNT0094900.2 11 10368039 A C
Osa11LNT0094900.2 11 10368630 A G
Osa11LNT0094900.2 11 10374092 A C
Osa11LNT0094900.2 11 10374835 A G
Osa11LNT0094900.2 11 10366131 T A
Osa11LNT0094900.2 11 10366900 A G
Osa11LNT0094900.2 11 10366535 A G
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
Osa11LNT0094900.2 DTM_#DNAt_MULE_japo_Os0301 Chr11 - 10365977 10366718 741
Osa11LNT0094900.2 DTM_#DNAt_MULE_japo_Os0301 Chr11 - 10366739 10367199 460
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa11LNT0094900.2 osa-miR5530 Translation 4.0 17.89 1 21
Osa11LNT0094900.2 osa-miR5808 Translation 4.5 17.429 1 24
Osa11LNT0094900.2 osa-miR6248 Cleavage 5.0 14.846 1 21
Osa11LNT0094900.2 osa-miR1436 Cleavage 4.0 11.647 1 21
Osa11LNT0094900.2 osa-miR1860-3p Cleavage 4.5 23.731 1 22
Osa11LNT0094900.2 osa-miR1864 Translation 4.5 18.348 1 24
Osa11LNT0094900.2 osa-miR2091-5p Translation 4.5 19.821 1 21
Osa11LNT0094900.2 osa-miR2106 Cleavage 4.5 14.899 1 21
Osa11LNT0094900.2 osa-miR2872 Cleavage 5.0 17.995 1 21
Osa11LNT0094900.2 osa-miR3981-5p Translation 5.0 17.077 1 21
Osa11LNT0094900.2 osa-miR5080 Translation 4.5 13.521 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa11LNT0094900.2 11 qDLR11 Resistance or Tolerance Other soil stress tolerance RM2596 RM286
Osa11LNT0094900.2 11 nan Morphological trait Seed RM332 RM229
Osa11LNT0094900.2 11 elr11-1 Physiological trait Eating quality RM1812 RM209
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