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

>Osa01LNT0057400.1

GCAAGAATAATATGCACAAGATTTATTTATGAAGGGTTATCATACAACATCACCATGACACCATCACGTTCTGATTAGCAGCGATGACGCGTCTCGTATTGTAATGTACACTGATCGATCTAGTTTCTATGCTGGCCGGTGCCATTTCTCTTACATGTGTACAGAAATTAAAGTCATGAAAAATAATAACAATACATCTATGGTTCAGGTGTAGTGGAAACTGCAATATAGTTGTAGTCGACTGTATTCCTGTCCTTGTTGAATCGAGTCTCTCTCACTGCAACCAACTTGACCTTCCACCGCTGGAATAAACTTACCCTTTCTGGTTCAACAGTCCTTTTGGCCAGCATGAGTGCCAAGAACACAGGCACCATTGCAGCAGCTAGATGCTTAAGAGTATGACCGCTAACAATTTGATGGGTCCATTTATATATAGGTTTATCTGCGGCCTCTTCTACCTTAGCAAGGAGGTAAAATCCTGCTGCCCACAGCCAATAGCTCGAATGTGTATACATTGGTGGAATTACAATAGCCATCACAGGTATTGCAATGCATGGAACAAACTGAATTACTGCATATGGGCGAAGATCGTCAAAGAACCTACATAAGAGTTAAGGCAGCAAAATGGAAGGTGTGAAAGAAGTACAGAAAATATTTCTGAGGAAGGATGGTTAAACAATTGGAGAAGCTTGCCTCCAATACATGATGCTTAGTGCACCAGCAATAACAAGAGGTGCTAGGGACTTTGTTCCTGCCCTATCATCAACCCTCTCAATAATGAAAATGGCCATGACAGATGTGAAAGCAATTGTCATCGGCAATCTGTCCCAAACTAGTGTGGCATCATTCGGTTTGAGATGATAATAGGATGAACCAAAAGCAACAGCAGTCACACCAGCAAAGAACAGTGTCCAACTCCAGAGCTCCCCTTGCGAGTTTAGCCTGAAGTAGTTTTTGTAATGGCACAAGACGAGCCCAACGACACCCACAAAAAAGAAGGGGATGTTTGAAATCACATTCAGCGTATTGGGGATCCCGAGGAAGAGGCGGCGCTGGTCGGCGAAGTCGTGGTACTCCTCGTTCTGCGGGATGGCCGGGGTGACGAGCATGAGCACGACGAAGATGGTGACCGCCGCCACCCACGCCACCCACTTCTTCCTCCTGCTCACATCCATCGCCGCCCGCTGCCGCCGCCGCCGCCGCCGCTTCTCCTCGTCGCCTCCTCCCTGTCGCGATGGATCGGTGGTGGAATTGGAATTGGAATCGGGGCGA

Coding Potentia
Explanation CPC Score
noncoding -1.08316
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa01LNT0057400.1 1 42413853 C A
Osa01LNT0057400.1 1 42414170 C G
Osa01LNT0057400.1 1 42414581 A G
Osa01LNT0057400.1 1 42415041 C T
Osa01LNT0057400.1 1 42415152 C T
Osa01LNT0057400.1 1 42415310 T C
Osa01LNT0057400.1 1 42416321 C T
Osa01LNT0057400.1 1 42415609 A G
Osa01LNT0057400.1 1 42415460 C G
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa01LNT0057400.1 osa-miR5818 Cleavage 5.0 13.663 1 21
Osa01LNT0057400.1 osa-miR5819 Cleavage 5.0 21.121 1 21
Osa01LNT0057400.1 osa-miR5338 Translation 4.5 13.754 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa01LNT0057400.1 1 brt1d Resistance or Tolerance Drought tolerance C742 C904
Osa01LNT0057400.1 1 rrw1b Resistance or Tolerance Other soil stress tolerance C86 RG236
Osa01LNT0057400.1 1 nan Morphological trait Root RM1387 RM1067
Osa01LNT0057400.1 1 qRNd1 Resistance or Tolerance Other soil stress tolerance RG236 C86
Osa01LNT0057400.1 1 nan Resistance or Tolerance Drought tolerance RZ14 R117
Osa01LNT0057400.1 1 nan Resistance or Tolerance Other disease resistance RG109 RG236
Osa01LNT0057400.1 1 ph1 Morphological trait Dwarf RG236 C547
Osa01LNT0057400.1 1 sd-1 Morphological trait Dwarf RZ730 RG810
Osa01LNT0057400.1 1 nan Resistance or Tolerance Drought tolerance RZ801 RG810
Osa01LNT0057400.1 1 nan Resistance or Tolerance Drought tolerance RG810 RZ730
Osa01LNT0057400.1 1 qHID1-2 Morphological trait Seed RZ801 RG331
Osa01LNT0057400.1 1 nan Resistance or Tolerance Drought tolerance RZ730 RG810
Osa01LNT0057400.1 1 nan Resistance or Tolerance Drought tolerance RG690 RG810
Osa01LNT0057400.1 1 nan Resistance or Tolerance Drought tolerance RZ14 R117
Osa01LNT0057400.1 1 qPH1-1 Morphological trait Shoot/Seedling C86 RG236
Osa01LNT0057400.1 1 qBMS1-2 Physiological trait Source activity RZ801 RG331
Osa01LNT0057400.1 1 qPHT1-1 Morphological trait Dwarf RZ730 RG810
Osa01LNT0057400.1 1 qTGW1-3 Morphological trait Seed RZ801 RG331
Osa01LNT0057400.1 1 qRIE 1 Resistance or Tolerance Submergency tolerance C86 G54
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