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

>Osa04LNT0266100.2

TACGTACTCCCTCCGTTTCACAATGTAAGTCATTCTAGCATTTCTCATATTCATATAAATGTTAATGAATCTAGACATCTATATATATTTAGATTCATTAACACCTATATGAATGTGGGAAATGCTAGAATGACTTACATTGTGAAACGGAGGGAGTATCATTTACACGGTTTTAACTTAGGAATTTAGCTACTGCTGACAGCCCAGCAAATCACATGAACAACCTACCAAATGGGGGAAGAATGATTATGATTTATGAAGAAAACAAACTACTAGTAGTATTCCTTTTGTCTTTTGAGATAAGAAAACAGCACCAAAGGCCAAGGTTGAAAGTTCATACCAGACATGCTTAATAGATCAAGACATTTCAAGCACTTACTCAGTATTAAGGCAGAAGAATTATATTAAAATAACCAAACTAACAACATACCACTTAAAATCTCGAAGGTCTGAGAAAAGGCATCGCCCATGTTCATTATGAATGATGTAACTTTTGCACTGCAAGAGCTTCACAAAACAGGGAATAACAAAGCTCAGCGCCCCCGGCCCCGACCACGGCCACGACCGCGTCCGCGCCCACGCCCCAAAGGTTTCCCTGCAGTTGGCTTCTTAGCCTTGACTCTCGGGGTATCCTCTACTAGTAAAGTTTCCAGATTTAAGCTATCAGGGAGGATGTAATAGCGAATGTTGTTTCCTCTCACACTGAGGTGGTCAAGGGTTACAGGATTTTTCCCTTTCAATGTGAGCTTAACAGTCTTCAAGTGGGTGTTCATGCTTATATCCACACCGGTGATGGTTCCGTGGACGACGGTGCCGTTCTTGAGCTCGATGGTGACCGTCTCGTTGTTCAGCTTCATCAGAAACCTGACGAGCTTCATCTTGGCGGCGGGAGGGAGGAGCGGAGGCGGAGGCGGCGACGAGCCACGGGTGGGAATCGGCGGAGCTCGAGCTGCTCGCTTTCTCGGAGCGGGAGGAGCAAAACCCTAATTTGATCTGGCCAAGACGCCAAAGCTGGTCTTGTTGGCTAACTTGGGCCGTTATTGGGCTTCATTTTC

Coding Potentia
Explanation CPC Score
noncoding -1.03148
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa04LNT0266100.2 4 23497015 A G
Osa04LNT0266100.2 4 23497764 A G
Osa04LNT0266100.2 4 23498256 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
Osa04LNT0266100.2 osa-miR5837.1 Cleavage 3.5 20.363 1 21
Osa04LNT0266100.2 osa-miR535-3p Cleavage 5.0 23.603 1 21
Osa04LNT0266100.2 osa-miR1428a-3p Cleavage 5.0 11.004 1 21
Osa04LNT0266100.2 osa-miR1436 Cleavage 2.5 15.31 1 21
Osa04LNT0266100.2 osa-miR1439 Cleavage 3.0 15.31 1 21
Osa04LNT0266100.2 osa-miR1857-3p Translation 5.0 24.84 1 21
Osa04LNT0266100.2 osa-miR1320-5p Cleavage 5.0 18.207 1 21
Osa04LNT0266100.2 osa-miR1320-5p Cleavage 5.0 15.31 1 20
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa04LNT0266100.2 4 qPH1-4-1 Morphological trait Dwarf RM241 C2807
Osa04LNT0266100.2 4 qCCFJ-4 Physiological trait Source activity RM261 RM3785
Osa04LNT0266100.2 4 qDLR4 Resistance or Tolerance Other soil stress tolerance RM3524 RM3866
Osa04LNT0266100.2 4 qDLR4 Resistance or Tolerance Other soil stress tolerance RM3524 RM3866
Osa04LNT0266100.2 4 d11 Morphological trait Dwarf nan nan
Osa04LNT0266100.2 4 nan Resistance or Tolerance Other soil stress tolerance RM5586 RM3916
Osa04LNT0266100.2 4 nan Morphological trait Culm/leaf RM3337 RM3785
Osa04LNT0266100.2 4 gpp4 Morphological trait Seed RZ569 RZ565
Osa04LNT0266100.2 4 orl1 Morphological trait Culm/leaf S10628 C377
Osa04LNT0266100.2 4 qChla4-1 Morphological trait Shoot/Seedling C2807 RM241
Osa04LNT0266100.2 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