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

>Osa07LNT0379900.1

GAGGTCCAACTAGCACAAAATCATATCAACACCATTTTGTAGCTTTTACAATTACAGTTTTCTTTTCCAATACCCAATTTGAGATTAATCCTGCTTACTAATTTGTAGTTTCTTTTCTTTTTTTTTTTCAGGATAACTATTAGAAACAGTCAAACCCAACTAATCATAGAGCCCTTCTTCATGCCATATGTCAACCAAAAAATCAACCATCTCAGATAACGGGATTGGCTGCGGAAAACGCTCACTTGTCGACAACAGATCATCATATGTTGTGCACCAGCTTATTATTGGCTCTTGTGATGCCTCTTTAGGAACTTTCTCCTGGTCTCCGGTCCATTGCCTTCTCATCTCGGCCCATGCTATAGCCGCATGGTTGATGAATGAGGTATCTTTCCCATTAGAATCATTGATGATAGAGTTGGGAAGTGATGATATATTCCCCTCAAGGGACACGGATACACTAACATTGTTCTCCATTGCTTCTAGGCCTGATGAGCATTGCCTTCTTTTTCCAATAGATAAATGGCGAGGCTTCTTTCTTACAGATGTTTTTGGTTTATAATCTGGAAGTGGCTGGGACTTGCTCAAATTACCTATGCAGCAACTGTACCCATATAAGCTTGAAGATGAGTTCGTCTGAACAAAATCAGCCAAACAGGGTGGCAATGGAACCATTCAACTAAGGCACATCGCTAAACTCTTCATTCGCCACGATTCATTTGTTTCTCCTTAAGAATCGATTCGAACCATCCGGGTGTGAAGCAGGACGGACACGAAATCGGACGGGGGAATCAGATCGAAATGCACCGGAGAGAAGAAACAGGCGGCCGGGCACCTCGCGGCAGCGGCGGGGCGAGCCTGGTGGTGGAAGGGGAGAGGCCACCAACCACGAAATCCGGCTTAGCTGCTTCGCCGCCCCTGTTCTTGGAGGAGAGAGAGGGAGATTCAGGTGGAGGAGGAGGAGAGAGAAAGAGATTGGAGCAAACG

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.823436
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa07LNT0379900.1 7 17427527 A G
Osa07LNT0379900.1 7 17427969 T C
Osa07LNT0379900.1 7 17428296 G A
Osa07LNT0379900.1 7 17429338 G C
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa07LNT0379900.1 osa-miR5542 Cleavage 5.0 14.646 1 21
Osa07LNT0379900.1 osa-miR160a-5p Translation 5.0 23.146 1 21
Osa07LNT0379900.1 osa-miR160b-5p Translation 5.0 23.146 1 21
Osa07LNT0379900.1 osa-miR160c-5p Translation 5.0 23.146 1 21
Osa07LNT0379900.1 osa-miR160d-5p Translation 5.0 23.146 1 21
Osa07LNT0379900.1 osa-miR160e-5p Translation 5.0 23.146 1 21
Osa07LNT0379900.1 osa-miR164d Translation 5.0 21.226 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa07LNT0379900.1 7 gp7a Morphological trait Panicle/flower R1440 RG128
Osa07LNT0379900.1 7 gw7 Morphological trait Panicle/flower R1440 RG128
Osa07LNT0379900.1 7 tp7b Morphological trait Culm/leaf R1440 RG128
Osa07LNT0379900.1 7 yd7a Morphological trait Panicle/flower R1440 RG128
Osa07LNT0379900.1 7 dth7.1 Physiological trait Flowering RM125 RM336
Osa07LNT0379900.1 7 nan Resistance or Tolerance Other disease resistance C1226 R1440
Osa07LNT0379900.1 7 nan Resistance or Tolerance Insect resistance RG773 CDO59
Osa07LNT0379900.1 7 qHd-7 Physiological trait Flowering RM125 RM432
Osa07LNT0379900.1 7 nan Physiological trait Flowering R2401 R1440
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