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

>Osa01LNT0043700.2

AGCAGGAATTGTCAGAACACACGCGAAAACATTTCTGCATTCTTTCAGGGATAACATTCATTCAGGGAGAAGAAGGATGCTCTTGCGGCTGTCAATAGAAATTAGCCACTGCTTCAGAGATCAATCTGTTGACATGGCTATGTTGTCGCAAACAGGAAACGGAAAACCTTAAGACCAGTATATAGCAGTTACAGAGCACATACCATAAAGGAAACTGCTCATCACATCAGATGGAGATAAAGAGAATGTTACCGGTTACATTTTCATAACAGAGCACCTCTTTGGGAATATACAACTTATCCAGGAGGCCAGTTCATCTGACGTCCCCCTAGAAGATGAATATGGAGGTGATATACAGACTGACATCCGTTAGGCCCATCATTGATGACAATCCTGAATCCATCATCAAGGTTCTCCTGCTTTGCAATGGTCTTAGCAGCGTAAAGAAGATGGCCCATAACCTCAACGTGTCTTTCTTCTGCCTTTGAGAGCCTAGACAATCCATCTTTAACCTTGGGAATTATTATAATATGTACTGGAGCTTGGGGTGATATGTCTCTGAATGCAAGGGTCTGCACTTTTCATCCTCATAAACCACCTGAGATGGGATCTCTTTCCGCAAAATTTTGTCAAAAATGGTTGGTCCGTCGGAGGGGCCGGCGGCGAGTGCGGCCTCCTTTTCGCCGGCCGTCCGAGAAGATTGGGACAAATGAGACGCGAGAACTGCGAGGCGGCCGCCGCTTCCGCTCGCCGGCGGCGGCAGCTGCGGCGGCGGTCGACTGGCACTGGCCCGGCTCATCCCTTCCCCGACTTCCTCGCCCAATCGCTGACTTACTGCTGCCTCCATCACCGT

Coding Potentia
Explanation CPC Score
noncoding -1.05892
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa01LNT0043700.2 1 34560813 A G
Osa01LNT0043700.2 1 34561221 C G
Osa01LNT0043700.2 1 34561683 T A
Osa01LNT0043700.2 1 34562587 C G
Osa01LNT0043700.2 1 34562821 T G
Osa01LNT0043700.2 1 34563175 G A
Osa01LNT0043700.2 1 34563309 C T
Osa01LNT0043700.2 1 34563537 A C
Osa01LNT0043700.2 1 34563706 T C
Osa01LNT0043700.2 1 34564187 A G
Osa01LNT0043700.2 1 34561321 A C
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa01LNT0043700.2 osa-miR171g Cleavage 5.0 23.674 1 21
Osa01LNT0043700.2 osa-miR172a Cleavage 4.5 17.434 1 21
Osa01LNT0043700.2 osa-miR172b Cleavage 5.0 17.434 1 21
Osa01LNT0043700.2 osa-miR172d-3p Cleavage 4.5 17.434 1 21
Osa01LNT0043700.2 osa-miR1426 Cleavage 3.5 17.434 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa01LNT0043700.2 1 An10 Morphological trait Panicle/flower nan nan
Osa01LNT0043700.2 1 qLEJ-1 Morphological trait Shoot/Seedling RM212 RM297
Osa01LNT0043700.2 1 brt1d Resistance or Tolerance Drought tolerance C742 C904
Osa01LNT0043700.2 1 rfw1b Resistance or Tolerance Drought tolerance C813 C955
Osa01LNT0043700.2 1 Pi35(t) Resistance or Tolerance Blast resistance RM1216 RM1003
Osa01LNT0043700.2 1 qLRC-1 Resistance or Tolerance Drought tolerance RM237 RM302
Osa01LNT0043700.2 1 nan Resistance or Tolerance Insect resistance RM543 RM472
Osa01LNT0043700.2 1 dth1.1 Physiological trait Flowering RG541 RG109
Osa01LNT0043700.2 1 ng1 Morphological trait Panicle/flower RG374 RG394
Osa01LNT0043700.2 1 ng1 Morphological trait Seed RG374 RG394
Osa01LNT0043700.2 1 sf1 Physiological trait Source activity RG374 RG394
Osa01LNT0043700.2 1 nan Physiological trait Source activity RG532 RM472
Osa01LNT0043700.2 1 sf1 Morphological trait Seed RG374 RG394
Osa01LNT0043700.2 1 nan Physiological trait Source activity RG374 RG690
Osa01LNT0043700.2 1 nan Resistance or Tolerance Drought tolerance RG690 RG810
Osa01LNT0043700.2 1 nan Morphological trait Root RM212 R2417
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