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

>Osa01LNT0026400.1

TAATGTAAAATGATGAAAATACCCTCCGTGACAACATCCATATATTACTGTCATTTCTCTGCATCTGTTGATTACATATGTCATTTCTCTGCATCTATTGATTACACATGCCAGAAGCATATGACGCAGAATAAAAAATGCCAAAAGTTTCCATTGCCGAAAGCAAATACTTAAAAAGAAAATCTCTCCAATTGAGAAAATACTAGTACTACTGGCAACAGCATAAACATGGCAAGAACCCAGAGAAAAAAGAAAAGCAGTGCATGAACATAGCAAGAACCTAGAGAAAAAAAAGAAATGCAGTGTTGTTTGCCTTCACCAACGCGGCTCGTGCATCAAGCAACCGCATCAAATCTTCCGGGAATGATAAGCAATTAGGCATACAAGCCCCCACCGCCGATGAAGCTGCGTCTCCCCATCGCCTCCACCGCCGCCGACAAAGCCGCGTCTCCCCATCACCTCCACCGCCGGGATGTGCTGGGAGGAGTGGGAGGGAGGTGGGGAGGGGGTCGGAAGCTTGGTGAGGTCTCGCATCTTACCGCCGCTGCATCGATGCAATCGATTTGGGAATGGGAGAGAAACACGAGAGAAAGAGTGAGAGACGGGCAGGAGATAAGAT

Coding Potentia
Explanation CPC Score
noncoding -1.18468
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa01LNT0026400.1 1 24125282 G A
Osa01LNT0026400.1 1 24125342 T C
Osa01LNT0026400.1 1 24124910 C T
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa01LNT0026400.1 osa-miR393a Cleavage 4.5 18.249 1 21
Osa01LNT0026400.1 osa-miR393b-5p Cleavage 4.5 18.249 1 22
Osa01LNT0026400.1 osa-miR2927 Translation 4.5 22.892 1 23
Osa01LNT0026400.1 osa-miR5337a Cleavage 5.0 15.576 1 21
Osa01LNT0026400.1 osa-miR2275d Cleavage 5.0 9.472 1 22
Osa01LNT0026400.1 osa-miR1438 Cleavage 2.0 6.543 1 22
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa01LNT0026400.1 1 brt1d Resistance or Tolerance Drought tolerance C742 C904
Osa01LNT0026400.1 1 rfw1b Resistance or Tolerance Drought tolerance C813 C955
Osa01LNT0026400.1 1 nan Resistance or Tolerance Drought tolerance RM129 RM5
Osa01LNT0026400.1 1 nan Morphological trait Root RM23 RM306
Osa01LNT0026400.1 1 nan Resistance or Tolerance Salinity tolerance RM1 RM5
Osa01LNT0026400.1 1 nan Resistance or Tolerance Salinity tolerance RM1 R886
Osa01LNT0026400.1 1 nan Resistance or Tolerance Salinity tolerance RM1 R886
Osa01LNT0026400.1 1 nan Morphological trait Panicle/flower CDO920 RZ776
Osa01LNT0026400.1 1 nan Resistance or Tolerance Drought tolerance BCD134 RZ776
Osa01LNT0026400.1 1 nan Physiological trait Source activity RG532 RM472
Osa01LNT0026400.1 1 qVB-1 Morphological trait Culm/leaf RZ776 RZ744
Osa01LNT0026400.1 1 qVB-1 Morphological trait Culm/leaf RZ776 RZ744
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