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

>Osa01LNT0044100.1

GGGTACAATTCGGAAGAGTTGATTGACTTGTATACGAAGTAGCTTACAGAAAACAAGCTTCCACGTACTTAATTAATTGCATACTAACATTTTGAAACTGAAGGTAAAAAAAAAGGGAACATGGTTTGCTTCATGTGCATATCTCTTCAACCCAAAGGTCAGCGGAAGCAATTTGATCAGATGTATGTCGTCCTGCTGCCCTAGAACAGCTGACCGCCCACAGCTTCGTGAATGACAGATAGGCACCAGCAGCACTGACTATTCAGCTATGGTATAAACAGCTGGCCGCTGGCGGCTGGACGGTACACACACCACCATGAGAATAGATTCTTTCAGCATTTGGGAAAGATCAATGGAGCTTCCTATCAACTTGCCTGGCAAGGAAGAGGCCAATAGAGGACCTTTTTTCCTCTCTCTTCAGTCTTTTTGCATTTGCCATGGTTATATCAGTGGCATGCATACCTGCAAACAAAGGAAGATCGGACGAAAGGTTGCACAGGCAAACTTGCATGTCTTACTTTCGTTTCTTTCTCTTTGCTTGTGGCTCATTGGCAATTGAACTTGTATGGCTACTCTGCAATGGATGATATATTGCTCTCTTCAATGCTTCCTCATACTCATTCAGTTTTTCCTTCTCCTTGTTATAAATGTTCTTATAAGTTGCTATTTGTTGCTTACAAACTTTCAGCTCCATGTTTACATCACTAAGACGGGAATCAACTGGAACTGTGCACTGTTGAACCAATTGTTTTTGACGTCCACGAACAACTTGTGGTTGCCATACATTTAATGCCACTGAAGCTCTCCTGACCCTCTCGAGGTTGTCCAGCTCCTGCGCGGCGGTCTTCATCTTCTCCCCTTCCTCCTGCAACGACTCTTCCAGCTGCGTCAGCCGCCTCCGGCACGCCAACACGCGGCCCTCTGCCTCGAACACCACCCGCCGCCTCGCCTCCGCCATCCGCACCTTATGCCTCTCGAACTTAGTTTTGTAGACGGATTTGGGGTGGAGCTGCTGCTGAGAGGAAGAGGAGGAGGCGGAGGAGGGCTGCGACGATTGGGTGGGGAAGTCGCGGGAGAGGAGCGCGGACCAGAGGGAGGGGTGGAGGGAGAGGCGGCGGAGGCGGCGGGAGGCGATGGCGAGGGCGCAGAGGTCGCGGAACCCCAGCGCGGAGGAGGCCGCGCCCGCGCCCGCGCCGAGCTCCAGCACGCGCGCCCACAGCTCGTCGGGGAGATCCGACGCCGACATGTCGGGTTAGGGTTGGGGATAAGCGCGGCCGCAGGTAGGACGCCGCCCCGTGCGGCCGCGCGAGCTACGCCGTCGCGCGGTTGCGCCTCCTCGCCGCCCGCGT

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.907435
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa01LNT0044100.1 1 34644725 A T
Osa01LNT0044100.1 1 34645230 G A
Osa01LNT0044100.1 1 34646163 C G
Osa01LNT0044100.1 1 34645736 A G
Osa01LNT0044100.1 1 34644221 G A
Osa01LNT0044100.1 1 34645322 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
Osa01LNT0044100.1 osa-miR5806 Cleavage 4.5 21.95 1 21
Osa01LNT0044100.1 osa-miR156j-3p Cleavage 5.0 24.469 1 22
Osa01LNT0044100.1 osa-miR1423-5p Cleavage 4.5 11.826 1 24
Osa01LNT0044100.1 osa-miR2118p Cleavage 5.0 22.11 1 22
Osa01LNT0044100.1 osa-miR2877 Translation 4.5 19.138 1 24
Osa01LNT0044100.1 osa-miR5083 Translation 5.0 21.136 1 20
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa01LNT0044100.1 1 nan Physiological trait Source activity RG532 RM472
Osa01LNT0044100.1 1 nan Resistance or Tolerance Drought tolerance RG690 RG810
Osa01LNT0044100.1 1 nan Morphological trait Root RM212 R2417
Osa01LNT0044100.1 1 An10 Morphological trait Panicle/flower nan nan
Osa01LNT0044100.1 1 qLEJ-1 Morphological trait Shoot/Seedling RM212 RM297
Osa01LNT0044100.1 1 brt1d Resistance or Tolerance Drought tolerance C742 C904
Osa01LNT0044100.1 1 rfw1b Resistance or Tolerance Drought tolerance C813 C955
Osa01LNT0044100.1 1 Pi35(t) Resistance or Tolerance Blast resistance RM1216 RM1003
Osa01LNT0044100.1 1 qLRC-1 Resistance or Tolerance Drought tolerance RM237 RM302
Osa01LNT0044100.1 1 nan Resistance or Tolerance Insect resistance RM543 RM472
Osa01LNT0044100.1 1 dth1.1 Physiological trait Flowering RG541 RG109
Osa01LNT0044100.1 1 nan Physiological trait Source activity RG374 RG690
Osa01LNT0044100.1 1 ng1 Morphological trait Panicle/flower RG374 RG394
Osa01LNT0044100.1 1 sf1 Morphological trait Seed RG374 RG394
Osa01LNT0044100.1 1 sf1 Physiological trait Source activity RG374 RG394
Osa01LNT0044100.1 1 ng1 Morphological trait Seed RG374 RG394
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