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

>Osa03LNT0219000.2

GGCCATAATGCACGAAGATATATTCATTAGTTTCACCAGTAATAGAAGGAACTGGAGGTACAAAATGAGTATAGTTACATAGTATAGTTACACAAAATTACTTCTATACAGATGCAATATCTCCTCGGTTCATGGCATCTATCTATCACTCCAGTCCAGTCTGTTTTTTTTTAGATAATGACCAGTCCAGTCTGTTGAAAAGGAAGAAAAATATTTGACAAACGTCACATCTAATCAGAAGAACATCTGCAATATAAAACCATTAGCATTTTGCTGTAAAGCAATATTATCATCTATGCGTGAATCTTTACATTAAACGGCCGGCATAGCATGCTCGAGGGTATTTTTGCTGCAGCTGGGGCCACTGCACGAAGAACTGATCAGCTATTCGTAGCTTGTACAACAGTAAACCGCTTAATGAAAGCTTCTTCACTCTTGCAATGCTTTCGATGTAGAAAATGGAGGACCATCCCAAACCAAGCACCTTCAGAAGAAAAGCCGAGACACACAGAGGAATGCATGTCCCTGGACCATTGCAAAAAATCACTTGTGGTCTTATTCTTATTATTATCCAGATAGCATGTGACGTAGCAAGCAATGTCGTTGCGATGGAAGTAATATAAGATTGGCCTACTTCACGACTGCGATATATCTGTACGAACTGTGCATTCTCAACACCCTCTTCTTTATCAACCTCAACCCGAACCAATGACTGCTCATAGACCTGTGCCTTCTGAAGGCTCATGTTGTCAGTAAGTGCAGCTACATAGTACCTTGGAGTAAATCTATCCTTCTGAAGTGTAGTTACAACATTCATCATTTCTGCAGTATGTCCTCCAGACCCAAGGACGATGAGAGACCGCATTCCAGCAGCTGAAGCTGAGAGTTTCGAAGGCATGTGACCGCTGTGATACATCACATATGCGAAGCGGACAAGAAGCAAAGACACAAGTACTGGAAAGGCGCAACACACGGCCATGGAGACATCCGGCCCCATCTCTGTCAGGGCTGACGAGATAAGATATCACGCAGGATTTTGCTTGCCACTAGCGCCCCCTGTCAGCCGTCCTGCGTCGTTGTTAGCCGCTGTGCTTGACCTCAACCGCCGTGCGCCACATTCAGCCACTACGCGGCAGCCCTCCGCCGCCGAGCCACCCTCACTGTAGGGCGTAGCCAGCAGGCGAGCAGGAGGCGGGAAGCGAACTAGCCAAGCAGATCGGCCTCCCGCGGCTCTGGGCTCCTCGCCGGCTAGCGAAGCAGATCGGCGGCCGGCCCCTCGCCAGTCGCGGGATCGCAGCTCGCGCACTCTCCGTCGCCGCCGTACCGCCCGTCGCCCGCCGCAATCGCACGCTCACACCCGCAGCCAGCCGTCCCCACTCCCGTGTCTTCACTTATTCTTCCAATCCGATGAGCAAGACAATGAAGCCGACGGTGGCGACAGTAGGGATGGCAACGGGGCGGGTTAGGGACGGGTTGGGCTGGAACGGCCCCGCCCCCGACCCCCAAACTCTCCAC

Coding Potentia
Explanation CPC Score
noncoding -1.28961
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa03LNT0219000.2 3 17618395 T C
Osa03LNT0219000.2 3 17619237 T C
Osa03LNT0219000.2 3 17620428 T C
Osa03LNT0219000.2 3 17620803 A T
Osa03LNT0219000.2 3 17621362 T A
Osa03LNT0219000.2 3 17621416 G C
Osa03LNT0219000.2 3 17618084 A G
Osa03LNT0219000.2 3 17620858 T C
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
Osa03LNT0219000.2 DTM_#DNAt_MULE_japo_Os0314 Chr3 - 17620837 17621335 498
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa03LNT0219000.2 osa-miR1846a-5p Translation 3.5 24.682 1 21
Osa03LNT0219000.2 osa-miR1846b-5p Translation 3.5 24.682 1 21
Osa03LNT0219000.2 osa-miR1846c-5p Translation 3.5 24.682 1 21
Osa03LNT0219000.2 osa-miR2868 Cleavage 4.5 15.185 1 20
Osa03LNT0219000.2 osa-miR5083 Translation 5.0 17.45 1 20
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa03LNT0219000.2 3 gw3.1 Morphological trait Seed RZ672 RZ474
Osa03LNT0219000.2 3 qGL-3 Morphological trait Seed R19 C1677
Osa03LNT0219000.2 3 qLWR-3 Morphological trait Seed R19 C1677
Osa03LNT0219000.2 3 ccf3b Physiological trait Source activity RM16 RM282
Osa03LNT0219000.2 3 ccfs3 Physiological trait Source activity RM16 RM282
Osa03LNT0219000.2 3 nan Resistance or Tolerance Other stress resistance RM4512 RM8208
Osa03LNT0219000.2 3 nan Resistance or Tolerance Other stress resistance RM4512 RM8208
Osa03LNT0219000.2 3 qDLR3 Resistance or Tolerance Other soil stress tolerance RM338 RM2453
Osa03LNT0219000.2 3 qGL3-1 Physiological trait Eating quality nan nan
Osa03LNT0219000.2 3 nan Morphological trait Panicle/flower RZ403 RZ452
Osa03LNT0219000.2 3 nan Morphological trait Shoot/Seedling RZ284 RZ403
Osa03LNT0219000.2 3 nan Morphological trait Shoot/Seedling RZ452 RZ448
Osa03LNT0219000.2 3 An5(t) Morphological trait Panicle/flower C1677 R19
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