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RiceLncPedia: a curated knowledgebase of rice Long non-coding RNAs
Sequence

>Osa03LNT0219700.1

GACAAAGAATCTACCCAAGAGTTGATCATGTTGATTCAGATGAAAAGGAAATGAATCTTTACATTACAGGCTAACACAAGTACACAACCATGGTTGCCAGCATAGCTAAATGTTGACATGATTGCTAAGAAACTCAATGATAAGTACTTGCACAACGACATGAACGCATGGATGGAGCGCCATCCGGAGATAGTTAACTATGATGCCATTCAATTTATTCAGTTTATGTAGCCTCCTATGGTCCTATCATTGGACTCGTTGAACACATGACATAAAATTTATGCTTCAGAATAACAGAATTCTGCTGTCACCAAAATATGTGAGCTCAACCATAAAGCAGAATGTTTCAGCATAGAGAGAAATTTGGAAGACTACTTGAACCGGTTTGAGTGAAATATGATTAGCTCAACAGCTACATATGCATATACCACAAGCTTGTCCCGCATTCTTTGCTGCATTTGCACCTGATATATGTAGCATCTCGTTGTCTTGTGGTGTGGGCTGATTCAAGCAGTTACTGTGCTTTACAATAACATGGCTAACTTGTAGAGCCATCGAGAGGCACTAAACGAACATAAGATCAAAGCATCCAAGAAGTGCCCCTGCGTAAAAAGTTGGTAAAAGATTAGCATTGACACCGGTCAACAATTTAAACCAAGAACGCCAACTTAGATCAGATGCAACGCAATGGTGACACGGCTCAGCAGGTCTTGCACGCTTGAATTCTAGACATTGATCACTCCAATCCTTCAATTATATGCAATCTTGTAATCTTGTATACTTGAATTTCAATCCTATAACCCAGATTGAGTGAAAATAACAGGATTTCTGCACTCCCCTGTGTTATATGCCTGACATATATTGTGGCATTCGATCGTAGACTAGATCAATCTGTCCCACAGGATAAAAAGAATATCAGAATGCAAATAAACAAGAGATGCTAGCCAGTATAGTACTGTTTCGGTGCTGCAAAATTTCCTTGGAGCAAACCGTATCCTGCTGCCTGTTCATGTCCATTGCTACTACCCTACAAAATCAATTGGAAGCAAGATCTACTGCAAAAAGGAAAATGTAATTGCAGGAGAACAGAGGTTGGCCAACTCACAGCATGGTTTCTTGGTCCTTGATTGGGCACATCATATTATCCTCCATCCTCTGGAGTATGTGCTGCGTAGGGCCGTAACCCATCACGGCTCCCCGGCGGGCGCACGCGAGGAGGAGGAACCGGCCGACGGCAACCCCAGCTCTCCAGAGGACGTGCCCGAGGAGGCGGCAGCGGCGGTGGAGAAGGCGCCGGCCGATGGCGAACCCGGCGGGGTAGGGCGAGCGTCGGGCGCGCGCGAGGAGGCGGCGGGGTAGGGGGCGCGGCTCCGGCGGGCACGCGCTCGGAGCTGGCGGCGGCGCCTGGCTGTCCGGCGGGCGCGTGCGAGGAGGCGGTGAGCGGCTCCGGGAGGCGGCGGTAGGCTAGCGCAGTACGGGAGTTATGGGATGGGAGCGAA

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.675193
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa03LNT0219700.1 3 18112146 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
Osa03LNT0219700.1 osa-miR166i-5p Cleavage 5.0 17.462 1 21
Osa03LNT0219700.1 osa-miR814a Translation 5.0 23.679 1 22
Osa03LNT0219700.1 osa-miR814b Translation 5.0 23.679 1 22
Osa03LNT0219700.1 osa-miR814c Translation 5.0 23.679 1 22
Osa03LNT0219700.1 osa-miR1431 Cleavage 5.0 22.354 1 21
Osa03LNT0219700.1 osa-miR1857-3p Cleavage 5.0 23.256 1 21
Osa03LNT0219700.1 osa-miR2105 Cleavage 3.5 9.229 1 20
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa03LNT0219700.1 3 nan Morphological trait Shoot/Seedling RZ284 RZ403
Osa03LNT0219700.1 3 nan Morphological trait Shoot/Seedling RZ452 RZ448
Osa03LNT0219700.1 3 nan Morphological trait Panicle/flower RZ403 RZ452
Osa03LNT0219700.1 3 An5(t) Morphological trait Panicle/flower C1677 R19
Osa03LNT0219700.1 3 gw3.1 Morphological trait Seed RZ672 RZ474
Osa03LNT0219700.1 3 qGL-3 Morphological trait Seed R19 C1677
Osa03LNT0219700.1 3 qLWR-3 Morphological trait Seed R19 C1677
Osa03LNT0219700.1 3 ccf3b Physiological trait Source activity RM16 RM282
Osa03LNT0219700.1 3 ccfs3 Physiological trait Source activity RM16 RM282
Osa03LNT0219700.1 3 nan Resistance or Tolerance Other stress resistance RM4512 RM8208
Osa03LNT0219700.1 3 nan Resistance or Tolerance Other stress resistance RM4512 RM8208
Osa03LNT0219700.1 3 qDLR3 Resistance or Tolerance Other soil stress tolerance RM338 RM2453
Osa03LNT0219700.1 3 qGL3-1 Physiological trait Eating quality nan nan
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