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

>Osa10LNT0065300.1

AAACTGACTGACACACCAGCATCTCATCAATCTTTGGACCTACACAGGAGTTAAGCAGATCTCCCAGGCCGGTGTGTTTGATTTTTTCGTCAACAATGTGATAGATACATTATAATAAAATATAACACATCCACCAAAAATCCATTATATCTTGAGACAGAGCGAGTATGCCTAATCTTGTCAGATGAAACAGATCATAATACTGAAACCAAATCAACGGTTATTCTTCCCAAGTAATTTCATCTGATTAGCTCTATCTTCCTCCTCCTCTATCTTCTTTCTACGCATCGCGTCTTCCCTTTGCTTTTGAATTCTTTCCAACTCTAAAAATCGCTCTAGCTCTTTCTGCTGTTGTTCCAGTGCTTCTTTTCTTTGAGCTTCCTCTACTTTTCGCCGATTCTCCTCAAGCATCCTATCCAACTCCTCCCTCTCTCTTCTTTCTTGTTCAGCTTTATGCCTGGCTTCACGCAGAGCCGTTTCCTTCTCTTTTTGTAGCTGAGCATCAACCTCATCAAATAACTGCTTGATGCCTTCCTCAACTCGCCGTTTTATTTCATTTTTGATGTCCTCGGAGTTCAAACGGTCCTCAACATTTTTTCTTATAGATTCTTCAACTCTTCGAGCGAGCTCCTCTTCAAGTAACTTCAGTTCAGCTTCCTTTTGGCGCCTTTTCTTATCTCCTTCTTCTTTTTGCTTCTCAATTAAATTGTTTTGCTCTGATACATGACTTGGGCTGCAGGAGTTATTTACAGTGGAACTTGTATTGCTTCGACTTCTCCGTCTTCGTTGTCGTCTTGGTGATGGAGGGCTTCTACGCCTCCTAGGAGTTGGGGACTGGCTTCTCTCCCATCTTGGAGAAGGAGACCGACTTTTTCTCCGTGTGGAGGTGTAGGGGGATCGGCTCCGATCTCGTCGACTCCGCCGGTTCCCATACCGCGGGGAAGGGGAGCGGCGCCGGCGGTGCGACGGCGGCGACCGAGACACCGCACGCGGCATCCCGCTCCGCGTGGCAGCCGGCACGAACAAGCACAACGGCGCCGCCGGTCTGACTTGGTCACCGTGCTAGTGCTGGGACTG

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.880258
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa10LNT0065300.1 10 7950848 T C
Osa10LNT0065300.1 10 7959498 C T
Osa10LNT0065300.1 10 7948878 G A
Osa10LNT0065300.1 10 7949604 T C
Osa10LNT0065300.1 10 7949755 A G
Osa10LNT0065300.1 10 7950281 G A
Osa10LNT0065300.1 10 7950628 A G
Osa10LNT0065300.1 10 7950653 T C
Osa10LNT0065300.1 10 7950660 G C
Osa10LNT0065300.1 10 7950839 C G
Osa10LNT0065300.1 10 7951589 C T
Osa10LNT0065300.1 10 7952734 A C
Osa10LNT0065300.1 10 7953257 T A
Osa10LNT0065300.1 10 7953269 G A
Osa10LNT0065300.1 10 7953623 A G
Osa10LNT0065300.1 10 7953629 T G
Osa10LNT0065300.1 10 7956843 A G
Osa10LNT0065300.1 10 7957430 C A
Osa10LNT0065300.1 10 7951827 C T
Osa10LNT0065300.1 10 7952023 A G
Osa10LNT0065300.1 10 7952324 A G
Osa10LNT0065300.1 10 7955755 A C
Osa10LNT0065300.1 10 7955771 A G
Osa10LNT0065300.1 10 7952327 A G
Osa10LNT0065300.1 10 7952512 A G
Osa10LNT0065300.1 10 7952561 G A
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
Osa10LNT0065300.1 DTM_#DNAt_MULE_japo_Os0610 Chr10 - 7953756 7956117 2361
Osa10LNT0065300.1 DTM_#DNAt_MULE_japo_Os0335 Chr10 - 7951621 7952601 980
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa10LNT0065300.1 osa-miR399d Translation 5.0 11.083 1 21
Osa10LNT0065300.1 osa-miR399i Translation 4.5 11.083 1 21
Osa10LNT0065300.1 osa-miR408-5p Cleavage 5.0 13.525 1 21
Osa10LNT0065300.1 osa-miR2096-3p Translation 4.5 7.073 1 21
Osa10LNT0065300.1 osa-miR3981-3p Cleavage 4.0 16.029 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa10LNT0065300.1 10 nan Physiological trait Sterility R2309 RG257
Osa10LNT0065300.1 10 nan Physiological trait Sterility C701 C16
Osa10LNT0065300.1 10 nan Resistance or Tolerance Other stress resistance R1933 R1629
Osa10LNT0065300.1 10 nan Resistance or Tolerance Other stress resistance R1933 R1629
Osa10LNT0065300.1 10 qPBN-10 Morphological trait Panicle/flower RM216 RM311
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