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

>Osa04LNT0271200.1

GCTAGCACATGCAGATTAACGGTACAGTACTCGAGTTACAAGCAAACATCAACGAAAAAACAACTGATAACTGAGAAGCATCATCAACGGTTTGATGCAGAGTGCACTTATTCTTAAGGGTACCATGGAAAATAGTTTAGCTAGCCAAGTAATAGGCTTATTCGTTGTTCCCTCTCCCAGCTTTTGGCATATGCAGTTTGAATCGAAATTACACAAAACCATGAGGCAGAGTCAGCTTCTTCGGCATCACAGGGTAATCTCCATTACTCAAGGCCTTCTTGCTTTTCTTAGAACTGGTATTCTTCTTTTCTCCCTTGTTGGATTTACTTCCTCCACTACGTTCGCCATAGGAATCCATTGTCCTCTTCTTCTGTAGCTTTTGTCCTTTGAACATATCTGTCCCGTTGACTAGGGTTGTTTTCAAAAATAGTTTAACGTCTGACCTGGACCGTAACTGTTTTTTGTATTTCTGATGATAGTAGAACCAATCTTTATGTCCATCATCCCTTATTTGAAGGAACACTGTCCAGTCCCCATCTTTGTAGTTATCGAGTTGTTTCATCCATTGAGGAACCGGAACCTCTTCTTTACTCGAATCCACTTTTTGGTGAAAAGCCACCTCTTGCCTGAAGGGAATGGAGTTCAAAGGTACAATATCCAAAGGTTGATTATTGCCAAGCTTATCTGGACCTTGAAGATTCAACATGGATGACATATCAGACATATTTTCCTCTTCCTCTAAATCTGCATCAATCACTATAGGAGGAATGTCATCCAGAGTCGCCTCTGAGTCAGAACTTGAATATTCAGAACCACTCATTGGAGCTACGCCCTTTGAAGCGTTATTACTCATAGAGA

Coding Potentia
Explanation CPC Score
noncoding -1.01909
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa04LNT0271200.1 4 25222003 T G
Osa04LNT0271200.1 4 25222534 T C
Osa04LNT0271200.1 4 25222786 A G
Osa04LNT0271200.1 4 25223127 T C
Osa04LNT0271200.1 4 25224698 C T
Osa04LNT0271200.1 4 25224713 A G
Osa04LNT0271200.1 4 25224761 C T
Osa04LNT0271200.1 4 25225252 A C
Osa04LNT0271200.1 4 25225028 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
Osa04LNT0271200.1 osa-miR159a.2 Translation 4.0 10.175 1 21
Osa04LNT0271200.1 osa-miR5144-5p Translation 4.0 17.09 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa04LNT0271200.1 4 nan Resistance or Tolerance Other soil stress tolerance RM5586 RM3916
Osa04LNT0271200.1 4 nan Morphological trait Culm/leaf RM3785 RM1388
Osa04LNT0271200.1 4 nan Morphological trait Culm/leaf RM3785 RM1388
Osa04LNT0271200.1 4 nan Morphological trait Culm/leaf RM3785 RM1388
Osa04LNT0271200.1 4 gpp4 Morphological trait Seed RZ569 RZ565
Osa04LNT0271200.1 4 qPH1-4-1 Morphological trait Dwarf RM241 C2807
Osa04LNT0271200.1 4 qChla4-1 Morphological trait Shoot/Seedling C2807 RM241
Osa04LNT0271200.1 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