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

>Osa07LNT0388700.1

AGCAGCGGTCCAACCAGGGGCTGTTTTGCAAATCCATTTCGCCTCACCGGAGATGAGATCCCATCGACGCGACGCCGCCGCCTCCTTCCTCCTCCTCTCGTCGGAGCCACCGCCGGGAGGGATTCATCGCGAGCGGCGGCTGAATTGGAACAGGTGAAACCAATGCAGCCGCACCCGCAGCCAGTGAGGAGATCGTCGTCTCCGGCCTCCGGGAATAGCGGTTTTTGATCGAAGACGCTTATGAAGAATGCGGAGATGAAAGGTTCGAAGCAGCCTAGAAGATCCATGGACGAAAATACTAATATGATAAGTAGTTTTCATCGTACATATGGAGTGTATGTTAAACTAAAGAAAAACTCCTACATGGTTCGTGGGACAAAAATGATGATACTAGTGAATTACAACTTAAATATGTGGCCAATATCATGATCATCTCAGAAACTGGCTGGTCATCACAGCGAGAACTGGAATCAAATAATTGAAATGCCGACGTATCACAGAAAAAGATAAGCCATTCTCTCTCGTCCTATCAGATAAAAGCTGGAACGTAACAGTGTGATATTTTTCTGCAGGTCCAAATAACAAAACAACGTGATACACACAAGTGGAAGGTTTTCCATTATCTAAAAAAGCGCACACAAAATGGGAGATACGATGCCAAAGTAAAGAGAGCAAATGTCGTGTCTTCCACTATGAGCAAAGAACCCTTGCAACCTGCAGATAGAAACGAATAAAGCTACGATAAAAATTGTCACTTAAATAGATATACACTCATTTCATACATGTCACCTAAAAAGTCATGATTTTTTTTAAAAAAAATTAGCAAGATAGATCAATATATATTATTTCAATTTTTAAAGTTAAAATTCAACCTAC

Coding Potentia
Explanation CPC Score
noncoding -1.25656
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa07LNT0388700.1 7 25570409 C A
Osa07LNT0388700.1 7 25571021 T C
Osa07LNT0388700.1 7 25571151 G A
Osa07LNT0388700.1 7 25571194 G A
Osa07LNT0388700.1 7 25571708 A T
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
Osa07LNT0388700.1 DTM_#DNAt_MULE_japo_Os0131 Chr7 + 25571646 25571973 127
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa07LNT0388700.1 osa-miR5143b Cleavage 4.0 12.271 1 24
Osa07LNT0388700.1 osa-miR5819 Cleavage 4.5 23.944 1 21
Osa07LNT0388700.1 osa-miR1858a Translation 3.0 22.599 1 21
Osa07LNT0388700.1 osa-miR1858b Translation 3.0 22.599 1 21
Osa07LNT0388700.1 osa-miR2918 Cleavage 4.5 16.956 1 21
Osa07LNT0388700.1 osa-miR5080 Cleavage 4.5 12.546 1 21
Osa07LNT0388700.1 osa-miR5143a Cleavage 4.0 12.271 1 24
Osa07LNT0388700.1 osa-miR5337a Cleavage 3.5 14.624 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa07LNT0388700.1 7 QRl7 Morphological trait Culm/leaf CDO497 CDO385
Osa07LNT0388700.1 7 nan Physiological trait Eating quality R1245 R1789
Osa07LNT0388700.1 7 nan Physiological trait Eating quality R1245 RM234
Osa07LNT0388700.1 7 nan Resistance or Tolerance Other soil stress tolerance R1245 R1789
Osa07LNT0388700.1 7 qSDS-7-2 Physiological trait Germination/dormancy RM320 RM234
Osa07LNT0388700.1 7 qCIVG7-2 Resistance or Tolerance Cold tolerance RM336 RM118
Osa07LNT0388700.1 7 qLVG7-2 Resistance or Tolerance Cold tolerance RM336 RM118
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