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

>Osa04LNT0273900.1

TTAAAATTATGACGATAGAACATGTTTTTTATAACAATAAGATTTTTTTTTGGCGATATCTCATTTTCTATCGCAACAAAAATACTAAATAAAAAAACGATTGTAAATCGTTGCAATAAAATATAGTTATTTATCACAGAAAAACTATCATTGCTACAGTGTAATATATTGATACTAATTATTTTTTATTATAATAATTTAGTGCCAATAGCTCAATTATTTTGTAGTCTGTACTCCGTCTCCAAAGGGCCTCACTTTTTGGCCTCTCCGCCGTCATCCCAGGAACGACGCCTCCTTGCCCTCAGCGAAGAACGCACCGGTCGGGCCGCCATCCGGCAGGAGGGCCACCGTCACGACGTTCCTCCCGCCCTCCTCGGGCGTCAGGAATCCCGAGTCGATGGTCATGTCCGTCTTGACGTAGCCCGGGTGCGCGCAGTTGACGCGCAGCTCCGGGTGCCTCCTCGCCAAGATCCTCGTGTACGCGTTCATGGCCACCTTGGCCGTCTTGTACGCCGCGAACGCCGTCGGCCACCCGTGCGCCTCCAGCGCGCCGGCCTCGAAGTCTTTCAGGAAGCTGTCCAGCACCTCGTCCAGCCGTTCCTCGGTGAGGTTATCAACGTCGTCCAGCTCCTTCCTCAGATCCTCGTTGTTGACGACCTACTTGATCGGGAGTAAAAAGGAAAAATCTCGATCGATTTCGATTTAATTTTGCCTTAATCGAGATATTGCAGGGACACGGTGTGATCAGTTTGAGGAACCTACTCTTAGTAGTCCAAAGTCGGAGGAGACGTTAACGATTCTTCCTTCGCCGGAGGATTGCAGGAGCAGTGGTAGCAAGGCTTGGATTACAATCTTCGTGCCGTAGTAGTTCGTCTGCACGCCGTTCTTTGCGGCGTCGTACGTCTCCCGGCCTTGTTTATTCAACCATGCAAGTCTTTGTTTCTTGTCCATGCTAACGAACTGTTCCTTGTTGGTATCCACTCCTTGGACGTACTCCATCCCGCCAACCGCTGCATTATTCACCAGTATATCTAGCTTGCCAAAACGAGTCTTCAAGAAATCAGCCAACCGAGCAACGCTAGAACTGTCCGTGACCTCCAGCTGATGGAAGACGACACTGGAGAGGCCCATCCCACTGAGCTTCTCGGCGGCCTCCACGCCCCTCGTCTCGTCCCTGGCCGTCAGAACCACCGTGATGCCGTCGGCAGCCAGCTGCCGGCACACCTCCAGTCCGATCCCTTTGTTGCCGCCGGTGACCACAGCAACCCTTTTAGTCGGGAGGCTGGTGATGTCTCGTTCCATTTTTTGCGTACAAGCAGATGCGCACCAACTTTCTTATTCGATTAGTGATCTGCTCTCTTCTGTGAGAAAAGCAGACTGACGAGTGAGGGCTATTAT

Coding Potentia
Explanation CPC Score
noncoding -1.02432
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa04LNT0273900.1 4 26591299 C T
Osa04LNT0273900.1 4 26591603 T C
Osa04LNT0273900.1 4 26591961 A 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
Osa04LNT0273900.1 osa-miR156a Cleavage 5.0 20.76 1 20
Osa04LNT0273900.1 osa-miR156b-5p Cleavage 5.0 20.76 1 20
Osa04LNT0273900.1 osa-miR156c-5p Cleavage 5.0 20.76 1 20
Osa04LNT0273900.1 osa-miR156d Cleavage 5.0 20.76 1 20
Osa04LNT0273900.1 osa-miR156e Cleavage 5.0 20.76 1 20
Osa04LNT0273900.1 osa-miR156f-5p Cleavage 5.0 20.76 1 20
Osa04LNT0273900.1 osa-miR156g-5p Cleavage 5.0 20.76 1 20
Osa04LNT0273900.1 osa-miR156h-5p Cleavage 5.0 20.76 1 20
Osa04LNT0273900.1 osa-miR156i Cleavage 5.0 20.76 1 20
Osa04LNT0273900.1 osa-miR156j-5p Cleavage 5.0 20.76 1 20
Osa04LNT0273900.1 osa-miR393a Cleavage 5.0 23.386 1 21
Osa04LNT0273900.1 osa-miR156k Cleavage 4.5 20.76 1 21
Osa04LNT0273900.1 osa-miR393b-5p Cleavage 5.0 23.386 1 22
Osa04LNT0273900.1 osa-miR2121a Cleavage 5.0 21.073 1 24
Osa04LNT0273900.1 osa-miR2121b Cleavage 5.0 21.073 1 24
Osa04LNT0273900.1 osa-miR5080 Cleavage 4.5 18.14 1 21
Osa04LNT0273900.1 osa-miR5499 Cleavage 3.0 24.46 1 21
Osa04LNT0273900.1 osa-miR5501 Cleavage 5.0 23.513 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa04LNT0273900.1 4 nan Resistance or Tolerance Other soil stress tolerance RM5586 RM3916
Osa04LNT0273900.1 4 rfw4a Resistance or Tolerance Drought tolerance RM349 RM1136
Osa04LNT0273900.1 4 gpp4 Morphological trait Seed RZ569 RZ565
Osa04LNT0273900.1 4 qPH1-4-1 Morphological trait Dwarf RM241 C2807
Osa04LNT0273900.1 4 qChla4-1 Morphological trait Shoot/Seedling C2807 RM241
Osa04LNT0273900.1 4 qChlab4-1 Morphological trait Shoot/Seedling C2807 RM241
Osa04LNT0273900.1 4 pss4.1 Physiological trait Source activity RZ740 RZ590
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