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

>Osa04LNT0270900.1

ACCAGATGGTGATGATGACGATGATGATAATACGGGACGTAGTAGCCGTGCCTCTGGAACTCGTGATGAGCCTGCGCATCTGCTCCTCCTCCTCCGCCTTCCCCGTGATCATCATCTTCTTCCTCGAGAGCCAGGATCTCGACCTTCTTCCCGGTCTTCTTCTTGATCCGCCTCACCGCCTTCTCCGGCTCGAAGTCGCCGCCGCCCGTCACCGTCACCTTGTTCTCTCCCCTCTCCACCTCGACTTTCTCGACTCCGTCGATTTTCTCTATGGCTCGGCGAACAGATCGTTCACAGGCTTTGCAATGCATGTAGATTCTCAGTTCTAGTTTGATGCTGTTCGTGGAGCTAGCATTTTCTTCATCCATGATGCCGGCCTACTGAACACGGTACGGTAAGATGTAGTATGAAAATCACCCTGGTCGTCTCATTCATCAATCCATGCCGATCGCGTGCTCTCTCCTGGCCACCGCAACGCCTGAGAAAACGCGAAAGACCTGACAATTACACGGATTGGTAGAGGTAATAATCTAGCTGTTCTTGCGCCAATGTTCAGGGAAGAAAGAGAATCTCTTCTATTGTACCCGCTCTCGCTGTCCTAAGAATTCGATCGACCCTGTTTGGGAAGTCGCATTGAC

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.723464
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa04LNT0270900.1 4 25060323 T G
Osa04LNT0270900.1 4 25061026 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
Osa04LNT0270900.1 osa-miR820a Cleavage 5.0 24.097 1 21
Osa04LNT0270900.1 osa-miR820b Cleavage 5.0 24.097 1 21
Osa04LNT0270900.1 osa-miR820c Cleavage 5.0 24.097 1 21
Osa04LNT0270900.1 osa-miR1846e Cleavage 5.0 17.921 1 20
Osa04LNT0270900.1 osa-miR2096-3p Cleavage 4.5 22.273 1 21
Osa04LNT0270900.1 osa-miR3979-5p Translation 5.0 16.529 1 20
Osa04LNT0270900.1 osa-miR5525 Translation 4.5 21.541 1 22
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa04LNT0270900.1 4 nan Resistance or Tolerance Other soil stress tolerance RM5586 RM3916
Osa04LNT0270900.1 4 nan Morphological trait Culm/leaf RM3785 RM1388
Osa04LNT0270900.1 4 nan Morphological trait Culm/leaf RM3785 RM1388
Osa04LNT0270900.1 4 nan Morphological trait Culm/leaf RM3785 RM1388
Osa04LNT0270900.1 4 qPH1-4-1 Morphological trait Dwarf RM241 C2807
Osa04LNT0270900.1 4 gpp4 Morphological trait Seed RZ569 RZ565
Osa04LNT0270900.1 4 qChla4-1 Morphological trait Shoot/Seedling C2807 RM241
Osa04LNT0270900.1 4 qChlab4-1 Morphological trait Shoot/Seedling C2807 RM241
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