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

>Osa11LNT0110400.1

GGACATGTAATTTACAATATTGCAACTGGTAAGGTTTGCATGTCTGAATTGGATATGTAATCCTCAGTGCAATTCTGGAGTATATATATAGTAAGGCATATATCAGCTCATATATCAACATATCCAAACACATATATATCTCCTCTGGTCCTCTTTGAACCCCTAGACATCTAGAAGGCAAAAACCCCTTCAGGGATCGAAAGAGGCAGCAAAAATAAAAGAAAAAAAACATTGAAGTTGGCAAAGAACTTAAGTGTCTCAACGTACAGTATATGACTAAAGAACTTTTTCTCTTTGCCTTCCTTGATGTCTCTCTATTCTATTTTACAAATATGTCCTTTGTAAATGTAAAATTTATTGCATCTTCCATATGTCCTCTAGACTCCATAGAGTTTCGGACAAACCCTCAGAAAAACCTTGCACCCAACCGTTAAGCTGTTGGTCCTGAAACTGTTCATTATTAGGCTGAATCTCTGTAGACCAAAACTCATGGTCCACCTCCTGCATCCAGTCTTCAGAGTTCATCTTCTCATCATCACCATGCACATGTAAGTTAATCTTCTTCAAATCTTGTGACTCCGACGTGAACGAATCGGAAGATGAGCTAGTCACCATGCTCGGAGAGCCATCAAAACAATTAGCAACAGTGGCCATTGTTACACCAGATACACATGATAAGTCGTTGTTGCTGTAGTCTCCGCTATCATCAACAGCGCCAGCCCTGGCATGGATGCGCTCGGCAAGGCGAGGCATCCATAGGTACTTCATGGCATCCTTGAACCTCTTGCTGTTGACATCACAATTGAGTTGCTTGGCATGCTTTTGCACTCTGGTCCTCCAGTAGTTCTTGATCTCGTTGTCGGTCCTCCCAGGCAAATGTTGTGCTATCTTGGACCATCTGTAGTTTCAATAATAATTGACCAAATGAGAAACCCACACATCTAATTATGTTACCAAGGTGTGAACCAAAGTGCAAATATGCTAAGAGCAAAAAAAAGGAATTAAGATGGATGGGTGGACACAAACATACAAGTGTAGAAATGAGAAGAGAGGAGGCGTGCAAATTCCAAACTGGTGGTACATCTTTCAGTGTCAGCGATGCATGCGTTTCTTTGTGCACAGGGGAATAAAATTAGCCGGCCATTGTTGGCTGATTAAAATTCTGAAAGTGTGTGAATTAGTGTGTCACGTCACGTACGTGCGTTTGTACATGGCAGGGACGAGTTGACATGTGTTGAGAGCGGCCAAGTCCACGTCACGTCCACGTCACAAGTCTGTACGACCGTGACATGTCCTTCCTTTACTTTTAGCTTAGCTTGCTAGCGGCGTCTACACGAGTCTAATCTGCATCACGAGGCGTCAAATTAAGCTCCCAGCTAATTAATCTAAGCTAAGCTAAGCTAGTCTTCATTCTTCTCTACAGTGTAGGACACGTGTCGCCTCGAGGTTTGCTGGATGGTGAGCATGGTGGTTAATTAGCAGGTCTTAAGAAGGGATTTAATTAGTTAATGACTACTATAAGTTAATGAAAGCTTCACTGAAGTCAGCCAATTAGATTAGAACGATAGTGCCTCCGTCTTCTAATATATTATGTTGTTCACTTTTTACATTATGTTTGATTTATCAGTAAAAATTTAAGCAAATATATTTTCTTTTGTTGTGGCCGTGTGGCTTGATTTATCGGTAATGAACTTTAACTATTACTTATATTTTTAAGATTTGTATAATTTTTTTAATAAGATGAATGATCAAAGGTTATAATAAGAATTAATGCCGTCATATATTAAAAATACAGAGGAAGTAGCTGAGAACATTTCTGATCTATGCATGAATACTAGATTCTATAAGATTAATTAATGACGAGTGAGCTAATTAATTAATTGATTATTACCGGTTGCCCCATCGGGAGTGGAGGTCGAGGATGAGCAGCTGCTCCTCTGCGGTGAAGTTGCCGCGCTTCACATCCGGCCGGAGATAGTTCAGCCACCGGAGCCGGCAGCTCTTCCCAGTCCTCTTCAGACCGGCGGCGCGTGCGAGTGCGTTCCAGCGGCCCTCGCCGTGATCAGAGATGTAATTGATGAGGGTGAGGTCCTCATCGACGGTCCACGGCCCTCGCCGGAGCTCAGCCGACGACAGCTCCGCCGCCGCCTCCTGCTGCTCCCCGGGCACCGGGTGGTGGCTCGTCCTCTGCAGCACCATCTCCATCGTTTCGCCAATCTTGATTTGATCTTAGCTTAACTATTACCGAATGAAATTGCCGATGGTCGATCGATCTTCACGAGGAGTAGGAGATATGGAGAAGAAGAAGAAGAAGAAGAGAGAGAGAGAGAAGATGCAAGGGTGCAGCT

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.917928
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa11LNT0110400.1 11 27672108 G A
Osa11LNT0110400.1 11 27670956 T C
Osa11LNT0110400.1 11 27672110 A G
Osa11LNT0110400.1 11 27671355 A G
Osa11LNT0110400.1 11 27670774 C T
Osa11LNT0110400.1 11 27670779 G A
Osa11LNT0110400.1 11 27671034 A T
Osa11LNT0110400.1 11 27671078 T C
Osa11LNT0110400.1 11 27671089 T C
Osa11LNT0110400.1 11 27671102 T G
Osa11LNT0110400.1 11 27671145 A G
Osa11LNT0110400.1 11 27671282 C A
Osa11LNT0110400.1 11 27671319 G T
Osa11LNT0110400.1 11 27671345 A T
Osa11LNT0110400.1 11 27671470 C A
Osa11LNT0110400.1 11 27671578 G A
Osa11LNT0110400.1 11 27671588 T C
Osa11LNT0110400.1 11 27671598 C T
Osa11LNT0110400.1 11 27671896 G A
Osa11LNT0110400.1 11 27671968 A C
Osa11LNT0110400.1 11 27672164 T G
Osa11LNT0110400.1 11 27672166 G A
Osa11LNT0110400.1 11 27672635 A G
Osa11LNT0110400.1 11 27672640 G T
Osa11LNT0110400.1 11 27672972 T C
Osa11LNT0110400.1 11 27672991 A G
Osa11LNT0110400.1 11 27673274 C G
Osa11LNT0110400.1 11 27672927 G A
Osa11LNT0110400.1 11 27673192 G C
Osa11LNT0110400.1 11 27672057 G A
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa11LNT0110400.1 osa-miR6248 Cleavage 4.0 11.848 1 21
Osa11LNT0110400.1 osa-miR6252 Cleavage 3.5 11.899 1 23
Osa11LNT0110400.1 osa-miR396e-3p Cleavage 3.5 17.163 1 24
Osa11LNT0110400.1 osa-miR535-5p Cleavage 4.0 20.774 1 21
Osa11LNT0110400.1 osa-miR1429-5p Cleavage 5.0 18.057 1 21
Osa11LNT0110400.1 osa-miR1854-5p Cleavage 4.5 18.144 1 21
Osa11LNT0110400.1 osa-miR1870-5p Cleavage 4.5 9.832 1 24
Osa11LNT0110400.1 osa-miR2118a Translation 4.5 16.789 1 22
Osa11LNT0110400.1 osa-miR2118c Translation 5.0 16.789 1 22
Osa11LNT0110400.1 osa-miR2118q Translation 5.0 16.789 1 22
Osa11LNT0110400.1 osa-miR5077 Cleavage 3.0 19.453 1 19
Osa11LNT0110400.1 osa-miR5145 Translation 5.0 21.162 1 24
Osa11LNT0110400.1 osa-miR5494 Translation 5.0 15.413 1 21
Osa11LNT0110400.1 osa-miR2275d Cleavage 4.0 12.24 1 22
Osa11LNT0110400.1 osa-miR1424 Translation 4.5 13.706 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa11LNT0110400.1 11 FON3 Morphological trait Panicle/flower RM4601 RM1233
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