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

>Osa11LNT0094900.4

CTCGATGAACAACACACCATTTTTGATAATTCTATCTATCTCTTCACGGCGGTATCCAGGATGAACGCCTTTAAACAGTATCAAGGCTTGAATTAGTGATGATGTGCATTCCACGTACCTCCACCCATGGAGTTGTTCTCTTAGATTCTGCAGAGGACAAAGTGCCATCCTTGTTCACATATGAAAGTAGGCAGTCAATAGCATCATACAACCTTTGTTCTTGAATTGGATCTCCTACTTGGGTTGGTGGAATCTTTGATAACAACAACACCGCCTTAAGGCATTCGGCAAGAGTATCCGCAATAGGCCATCCATTTTCTCCATTTGATAATGTCCATGAACCTTTTGACCTTTCACGGTAATATCTTTTGTAATTAGGACAATTCTTGGTTACCTGCGCATTCTTTATAAAATCATGAGCTTTCTTGATAGTTTCACTAAATTCTTGGGTAAGGCCGGTTGAGCAGTAGGCCTGAACTATAAGGGCAGTATCCCAGCACCGGCTACCAACGTACACATCATAAAATTTATTTTCTTCCATTTTTACTTTTTTGGCCTATTACAGCCGGTGGCGGTGCCACCTCCCGGGCAGGTCAGGCGACCGCTTGGGCTCCGCCACTGCCGTACGTCTCCACTACCGATAGCTTTGACTTCATTCCATCTTCTGCAAGCCATAGGAAATCATGAATCCTTGGAACGTGTCGTCTGAATGCATTGGAGTTCGGATTTTCTATCCAGCAGCAAATCATATTTAATACCTTGTTAATTGGGCATAAACCCACATAATTGCTGTTTTCATCTTCATAGTGAATATGATCCATGAGGTTGGTCAAAGCTCTTTTTCTTAGCTTGTTCATTGGCCACATATTAAATAGTGGTTCCATAAATTTATGTAAAGAAGCCATAGCAATGTTTTGGAACCACGAAGGAGGATAAATAATGTCGTCCTTGCAACAAGAAATGCGAGCATTGTTCCAATTGATCTTGTTGTATGGTACATCATAGAGCTCTTCTCTTAGTGCCAGTATAGTTGGAGTTATTGGCCCAATAAATCTTTTTGCATATATATAAGACATTGGCATATAAACCATCCGGCAAAAGCACCAAAATCTTCCTGGATGAATGGGAAGAAAATGTGGAAGCAACCATAGTTCTGGAATAATTGGATTGTTCCCTGACCAATCGTAAACACCAATTACCGAGAGATATATCTTTGCCCATTGTGGTGCTACAGTTGCACTGCCATGAGACAGAATCCAGGCACGCCCTTTTGATAATCCATCATTGTGTTCATCCAGTACCTCCCCTAAGAGCCTTAAGGTAGCATAGTTAACACATGAGCCAAACATGGAGCTTGGGCCTAAAGTATGTGTACTCCAACCCCCATCTTCATTCTGAATGTTGTAGATGTAGCGGCATATCTCACGTATATGCTCAGATGATAAGACATCGTTTAGTGACTTAGTCACATGTAAGGCAAATATCATGAGCGGCAGAATGAACAAAATCCCGCTGTAACCACCAGGCCAATACCCATCTGGTGCTTGCAAAGAGGAATATTGATCAAGAACACGTCTTAAAGACGTTAATAGAACTTCTTCTGTGACTTCTGAACTGTCTTTAAGATTGCTTACTTCATGTTTACTGTAAACTTGGTTCTCTTTTGCAAACTGCATCCTCATCAGGAGGTCGCTGCACTCCCTCTGTGTGAAGCGGTTGCGGGTGAAGTCGCGGCGGAGCCTCTCGACCACGGCGTGCTCCTCCGGCGAGCCGCCGTTGGGGTCGAACTCCCACGTCTCCCGGCCGAGGAAGCCGTTGCTGGAGCGGAGCAGTGGGTTGCTTGCCCCCTCACCAAACTTTAGCTTCCACATCGTATATTGTTTAGCTTCCTGTTGGTGAACT

Coding Potentia
Explanation CPC Score
noncoding -1.15273
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa11LNT0094900.4 11 10356469 T C
Osa11LNT0094900.4 11 10356592 C A
Osa11LNT0094900.4 11 10356865 C T
Osa11LNT0094900.4 11 10356875 T A
Osa11LNT0094900.4 11 10356998 C T
Osa11LNT0094900.4 11 10357135 G C
Osa11LNT0094900.4 11 10357277 T C
Osa11LNT0094900.4 11 10358345 C G
Osa11LNT0094900.4 11 10359097 A G
Osa11LNT0094900.4 11 10359400 T A
Osa11LNT0094900.4 11 10359820 G A
Osa11LNT0094900.4 11 10359882 A C
Osa11LNT0094900.4 11 10360110 A G
Osa11LNT0094900.4 11 10360276 T C
Osa11LNT0094900.4 11 10360522 A G
Osa11LNT0094900.4 11 10360579 A G
Osa11LNT0094900.4 11 10361013 A G
Osa11LNT0094900.4 11 10361161 A G
Osa11LNT0094900.4 11 10361691 C A
Osa11LNT0094900.4 11 10362260 T C
Osa11LNT0094900.4 11 10363305 G A
Osa11LNT0094900.4 11 10363495 A T
Osa11LNT0094900.4 11 10363540 A G
Osa11LNT0094900.4 11 10363844 G A
Osa11LNT0094900.4 11 10364077 G A
Osa11LNT0094900.4 11 10366737 C A
Osa11LNT0094900.4 11 10367723 T C
Osa11LNT0094900.4 11 10367963 T C
Osa11LNT0094900.4 11 10367984 T G
Osa11LNT0094900.4 11 10368039 A C
Osa11LNT0094900.4 11 10368354 T G
Osa11LNT0094900.4 11 10368630 A G
Osa11LNT0094900.4 11 10368655 T C
Osa11LNT0094900.4 11 10368883 T A
Osa11LNT0094900.4 11 10370127 T C
Osa11LNT0094900.4 11 10370217 A G
Osa11LNT0094900.4 11 10370223 A T
Osa11LNT0094900.4 11 10370414 T A
Osa11LNT0094900.4 11 10370489 G A
Osa11LNT0094900.4 11 10370801 T C
Osa11LNT0094900.4 11 10370894 A G
Osa11LNT0094900.4 11 10370899 C A
Osa11LNT0094900.4 11 10370972 C G
Osa11LNT0094900.4 11 10371159 C T
Osa11LNT0094900.4 11 10371426 C G
Osa11LNT0094900.4 11 10372771 A C
Osa11LNT0094900.4 11 10373493 T C
Osa11LNT0094900.4 11 10373530 A G
Osa11LNT0094900.4 11 10373556 T C
Osa11LNT0094900.4 11 10373587 A G
Osa11LNT0094900.4 11 10373667 T G
Osa11LNT0094900.4 11 10374006 T G
Osa11LNT0094900.4 11 10374092 A C
Osa11LNT0094900.4 11 10374196 A G
Osa11LNT0094900.4 11 10374384 A G
Osa11LNT0094900.4 11 10374835 A G
Osa11LNT0094900.4 11 10374980 A G
Osa11LNT0094900.4 11 10375297 C G
Osa11LNT0094900.4 11 10375562 T C
Osa11LNT0094900.4 11 10375958 T A
Osa11LNT0094900.4 11 10376092 T C
Osa11LNT0094900.4 11 10376163 A G
Osa11LNT0094900.4 11 10376167 T C
Osa11LNT0094900.4 11 10376317 A T
Osa11LNT0094900.4 11 10364165 A G
Osa11LNT0094900.4 11 10364682 G A
Osa11LNT0094900.4 11 10371093 A G
Osa11LNT0094900.4 11 10376546 C T
Osa11LNT0094900.4 11 10359000 C T
Osa11LNT0094900.4 11 10368480 T G
Osa11LNT0094900.4 11 10375030 A C
Osa11LNT0094900.4 11 10366900 A G
Osa11LNT0094900.4 11 10366131 T A
Osa11LNT0094900.4 11 10366535 A G
Osa11LNT0094900.4 11 10357743 G A
Osa11LNT0094900.4 11 10358229 T C
Osa11LNT0094900.4 11 10358249 A G
Osa11LNT0094900.4 11 10365265 A G
Osa11LNT0094900.4 11 10361712 A G
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
Osa11LNT0094900.4 DTM_#DNAt_MULE_japo_Os0301 Chr11 - 10365977 10366718 741
Osa11LNT0094900.4 DTM_#DNAt_MULE_japo_Os0301 Chr11 - 10366739 10367199 460
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa11LNT0094900.4 osa-miR5530 Translation 4.0 17.89 1 21
Osa11LNT0094900.4 osa-miR5808 Translation 4.5 17.429 1 24
Osa11LNT0094900.4 osa-miR6248 Cleavage 5.0 14.846 1 21
Osa11LNT0094900.4 osa-miR1436 Cleavage 4.0 11.647 1 21
Osa11LNT0094900.4 osa-miR1860-3p Cleavage 4.5 23.616 1 22
Osa11LNT0094900.4 osa-miR1864 Translation 4.5 18.348 1 24
Osa11LNT0094900.4 osa-miR2091-5p Translation 4.5 19.821 1 21
Osa11LNT0094900.4 osa-miR2872 Cleavage 5.0 17.995 1 21
Osa11LNT0094900.4 osa-miR5080 Translation 4.5 13.521 1 21
Osa11LNT0094900.4 osa-miR5147 Cleavage 4.0 18.729 1 21
Osa11LNT0094900.4 osa-miR2275c Cleavage 3.5 6.789 1 23
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa11LNT0094900.4 11 elr11-1 Physiological trait Eating quality RM1812 RM209
Osa11LNT0094900.4 11 qDLR11 Resistance or Tolerance Other soil stress tolerance RM2596 RM286
Osa11LNT0094900.4 11 nan Morphological trait Seed RM332 RM229
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