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RiceLncPedia: a curated knowledgebase of rice Long non-coding RNAs
Sequence

>Osa01LNT0048500.1

AGTACTTAAGTCATGTCAAAATATTGTCAACCTCAGAAAGAATTGACATGGAACAACAGATCACAGCATTAACAAAAGAACAACAAATGACTCGGATAAATTCCGTTGGTGATCTACCGCTTAAGAATCTACCAGATTGGGAAAAACAAAAACTGCCTGTTAATTGCTAAAGCAAAATTTTAAGCAGTATATGTTGAGTACCAGTGCCATAATATAACATCATTTCCCCAAAATAGCTAGAGCTGTTTCCTCTTCTTGGTCTTTGACCAACTAGATGCATGTTTCTTCAATTTGTGAAGTATTGTTCTCTCGCTCACCCGCAGCACCAAAGAATGATAGAGATTCCTTTCGTTGACAGAAGAGCATGCTTGCAGTTTTTGCCTGTCATCTTCCAAAGTGTTTGAACCATAGAGGCTCTCCCTCATGTCAACAAGGGATACAAGTGCAGAACAAACGCTCTCATTAAGCAATAGCTTCTTAACATCAGGCAATTTTTCAAGCCCGCTAATATCTGGATGTTGATTGGAGCTTGTTACTCTGACAACCTTAAGCACACTACTAATGCTGTCGACCTCATCATCACCAATCAGATCATGAGCCACGCTGGCCAGCTTGTCATAAGCATCAGACTTCAAGGAGATGATATAAAGCAGGATCAAAAGTTCAAGCTGGGGCTCTCCATCATATGAAATCTCAAAGTAGTCAGCATCTTGGCTGGTGCAACCTGAATAGCCCAGATTATGCCAGAGTGATACCCTTGCTCTTGCATATCGACGGGAGTACTTAGAAGAGCACCACTTAGTAACCAGAGCTAAGTCGATGTTGACGATGTCATATGAGTTGTCCATCTCTGTGAAGCCATATCGATGAAGCAAAGCAGCATTTCCCATGGTACCGTATGTGTTAAAAACCTCCTCCCCTTCATTGACATCTCTCACAACAATCATTTCCAAATCTTCATCGTCATCTCCTGAAGGGATGTCGGCAGAATTTTCTATAGTTGACTGTTCATCAGCAGAAGCATTGTTTGGATCTTCACCATCTTCACTATCTGAGTCCGAGGCTTCTAACACTGAAGTGAAGTGGACATGTTCCCCACCAGTCTTGTGGTTAAAAAGGTCAGCCAGGGGAACCATTCCAGACCCATGATAGCTATCTATTCGGAAGGACCTCGACGAAAGTAGACTCTTAGCAGAGAAATAATTCTCCAGGCTAAAATCATCTGGGTCAACCTCAAGTTCTCCTGACAAAATGAGTGGCTCAATACACTCTTTCCAGTCCTCACATATGAACTGCCTGTCTTGCTTCACTATCTGCCTTATCGAGCTCGGTGCCGGCCAGGAGGCGCTCGGCCTCATCGGCGGGCCAGACGAGCGGCACGGGCTCCCGCTCGGGGATCAGGCGGAGGTAGGCGTCCCACGGCGACTCGGCGCCGCGCGCGCGCTCATACATGACGGCGACGGCGAGCGCGAGGGGCCCGCCGAGCTCCGCGGCCTCGATGGCCTCGGCGGCGCCGGAGGTGCGCGGGGTCAGGCACGCGCCCCGCGGGATGGTGGCCACGAGGTCCCCCTCCCGGAGCGCGGCGAGGGCGCGCACGTAGACGCCGCCGCCACCGTCCTCGGCGGCGTCGAGGCGGAGCGCGTTGCTGCAGACGACGCCGTGGTCCCGCATCCACCGCCTGAAGGCCCGTAGGCGGCGTGCGGTGGAGGTGGAGGCGGAAGCTTC

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.913705
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa01LNT0048500.1 1 38157329 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
Osa01LNT0048500.1 osa-miR5540 Translation 4.5 23.7 1 21
Osa01LNT0048500.1 osa-miR167a-5p Translation 4.0 18.718 1 21
Osa01LNT0048500.1 osa-miR167b Translation 4.0 18.718 1 21
Osa01LNT0048500.1 osa-miR167c-5p Translation 4.0 18.718 1 21
Osa01LNT0048500.1 osa-miR167d-5p Translation 4.0 18.718 1 21
Osa01LNT0048500.1 osa-miR167e-5p Translation 4.0 18.718 1 21
Osa01LNT0048500.1 osa-miR167f Translation 4.0 18.718 1 21
Osa01LNT0048500.1 osa-miR167g Translation 4.0 18.718 1 21
Osa01LNT0048500.1 osa-miR167h-5p Translation 4.0 18.718 1 21
Osa01LNT0048500.1 osa-miR167i-5p Translation 4.0 18.718 1 21
Osa01LNT0048500.1 osa-miR171i-5p Cleavage 4.0 15.772 1 21
Osa01LNT0048500.1 osa-miR167j Translation 4.0 18.718 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa01LNT0048500.1 1 nan Resistance or Tolerance Other soil stress tolerance RZ730 RZ801
Osa01LNT0048500.1 1 nan Resistance or Tolerance Other soil stress tolerance RZ730 RZ801
Osa01LNT0048500.1 1 nan Resistance or Tolerance Other soil stress tolerance RZ730 RZ801
Osa01LNT0048500.1 1 nan Resistance or Tolerance Other soil stress tolerance RZ730 RZ801
Osa01LNT0048500.1 1 nan Resistance or Tolerance Other soil stress tolerance RZ730 RZ801
Osa01LNT0048500.1 1 nan Resistance or Tolerance Other soil stress tolerance RZ730 RZ801
Osa01LNT0048500.1 1 nan Resistance or Tolerance Other soil stress tolerance RZ730 RZ801
Osa01LNT0048500.1 1 nan Resistance or Tolerance Other soil stress tolerance RZ730 RZ801
Osa01LNT0048500.1 1 nan Morphological trait Seed RZ730 RZ801
Osa01LNT0048500.1 1 tn1-4 Morphological trait Culm/leaf RZ730 RZ801
Osa01LNT0048500.1 1 fll1 Morphological trait Culm/leaf RZ730 RZ801
Osa01LNT0048500.1 1 ph1 Morphological trait Dwarf RZ730 RZ801
Osa01LNT0048500.1 1 sd1 Resistance or Tolerance Drought tolerance RZ730 RZ801
Osa01LNT0048500.1 1 nan Morphological trait Root RZ730 RZ801
Osa01LNT0048500.1 1 nan Resistance or Tolerance Drought tolerance RZ730 RZ801
Osa01LNT0048500.1 1 Fh1-2 Morphological trait Dwarf RZ730 RZ801
Osa01LNT0048500.1 1 nan Physiological trait Source activity RG532 RM472
Osa01LNT0048500.1 1 nan Resistance or Tolerance Drought tolerance RZ730 RG810
Osa01LNT0048500.1 1 nan Resistance or Tolerance Drought tolerance RG690 RG810
Osa01LNT0048500.1 1 nan Resistance or Tolerance Drought tolerance RG810 RZ730
Osa01LNT0048500.1 1 qNOP-1 Morphological trait Culm/leaf RZ730 RZ801
Osa01LNT0048500.1 1 qPHT-1 Morphological trait Dwarf RZ730 RZ801
Osa01LNT0048500.1 1 qPL-1 Morphological trait Panicle/flower RZ730 RZ801
Osa01LNT0048500.1 1 qSF-1 Physiological trait Source activity RZ730 RZ538
Osa01LNT0048500.1 1 yd1 Morphological trait Seed C2340 C86
Osa01LNT0048500.1 1 yd1b Morphological trait Seed C547 C2340
Osa01LNT0048500.1 1 qNSB1-1 Morphological trait Panicle/flower C86 C2340
Osa01LNT0048500.1 1 qSSBp1-1 Morphological trait Panicle/flower C86 C2340
Osa01LNT0048500.1 1 pl1.1 Morphological trait Panicle/flower RZ730 RZ801
Osa01LNT0048500.1 1 qChll1a Morphological trait Culm/leaf C86 C813
Osa01LNT0048500.1 1 qPHT1-1 Morphological trait Dwarf RZ730 RG810
Osa01LNT0048500.1 1 sd-1 Morphological trait Dwarf RZ730 RG810
Osa01LNT0048500.1 1 qLVBTS1-1 Morphological trait Panicle/flower C2340 C86
Osa01LNT0048500.1 1 sf1.1 Physiological trait Sterility RM212 RM315
Osa01LNT0048500.1 1 brt1d Resistance or Tolerance Drought tolerance C742 C904
Osa01LNT0048500.1 1 qSH1 Morphological trait Panicle/flower nan nan
Osa01LNT0048500.1 1 nan Resistance or Tolerance Insect resistance RM543 RM472
Osa01LNT0048500.1 1 nan Physiological trait Eating quality RM8084 RM6827
Osa01LNT0048500.1 1 dth1.1 Physiological trait Flowering RG541 RG109
Osa01LNT0048500.1 1 qH2O21 Others Others C86 C813
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