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

>Osa05LNT0316700.2

ATAGCATTGGAAGCAGACAAATTTCAAAATTCAGTATATTTGTCCTTTCATTTGTTTTGACTTCAGTATCGGAAAATTGCATCTATTTGTAAATTTAAATTTATTTGCAAAAGGTAAATACAATGTTAGGCATTATGGCAGGATGAACAGAGAATTAATGGATTGACACTGTTATTTTCTACTCCATATGTAGATTCCGGTTGCTATTACTACACCACCTAATGCTCCAATGGATGCCAAAATTTTCATCTTTGAAGCACCTTGCTTAGTCACTGGTAATACCAGTAAACTTTCTATCTCGATTGGTTGTTCCCAATTTTTCTTTATTCCAGAAACATGCCCTTTTCCTACAACTGCCACCACCGAGGAATGTTCCTTTGCTACCTTCAATAATTTGGAGGACATATACATATCACGTTCATGTAGGAGTGTCTCCATCAAGGTAGGAAATGCCTTACTCATCTCTTGAATAACAAGTGTTAGCATGTCAACATCCTCCATGTCCTTCAGCATTTTATTAAGTTCCTCCGGGCTTGGTAAAAATATGGACTGGAAAACAATGTAGTACAAAAACTTTGCCCTGTGCCATAATGACATTCTCCCCCAAGTCCTTCTCAAAGTGATCTTAAATTGGCACAGCCAGTCAGCTGTTATGAATATCCTCTCCCTTCTTCTTCTTGCATCTATCTATAACCTGTATGGAGGTTATAGACAACCAAATTCAACCACTAGATAAGTAGGTTGCATACCTGGACAGGGCGATCTCCAAGGATAACTTTGCCGCCATAACTCATTGCTTCCTCAAATGCCACTCGGAATTCGGCCCCAGGTAACACATCAAGTTGGCTAGCAACCTTTGCAAGAAACCAGCTGTAGAGTATTCCAAAAGTGTTCATCTTCTTTTTCTTCCACATGTCAATCATTTCGTTCATGGTAGGAACCTGAAGGTTTTGTGGTGTCAGAATGGCGACTCTGCTGGCACAGAGCTCCAAGAAAACAGCCTGAGGTTTCAGGTAGTCGATGACGGCTTTTACTTGGTCACATGATTCCTGTGAAACATGGGCGGTGCCGACGACGTAGACGCGGCAGGTCCCGCCCGCCCCCGCCGCCTCCGCCTCGGGCGACGTCTCGCACTCGAGGCACACCACCCCCTTGGCGAGCTCCTCGGGCAGCTCCTTCCTCTCCCTCTCCCCCTCCCCCTCCCCCCGCACCACCTCTCCCCCGCCCGTCTCCGCGTCGGCGAACTCCGACGCGTCCTCGTAGCCCCCGCCCTCGCCGTCGGCGGCCGGATCCATGAGCAGACCGAGCGGTGTGAGGCCGCGGCCGCCTCGGATCGGGCCAGTGCACAGCAGGGCCTGGACCAGTGAGGCCTGGAGCGGCGACAGGCGGCGGCGGAAGAGAGGCGGAAGCGGGAGGCGGCGGCGGTGGATCGGCGGCGACGACGAGTCTGGGAGGAGGCGACGAGGAGCGCGAATCATGCGGCGGCGGGCGTCGAAATTTTTTTTTTGAGAGGGATTTTTTTTTTTTTTTGATGAAGAGGAAGAGTTC

Coding Potentia
Explanation CPC Score
noncoding -1.02989
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa05LNT0316700.2 5 24590773 T C
Osa05LNT0316700.2 5 24591090 T C
Osa05LNT0316700.2 5 24591703 G T
Osa05LNT0316700.2 5 24592932 A C
Osa05LNT0316700.2 5 24593207 T 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
Osa05LNT0316700.2 osa-miR5809 Translation 4.0 21.628 1 20
Osa05LNT0316700.2 osa-miR5835 Translation 5.0 19.675 1 24
Osa05LNT0316700.2 osa-miR2873c Translation 4.0 12.255 1 21
Osa05LNT0316700.2 osa-miR435 Cleavage 4.0 16.137 1 20
Osa05LNT0316700.2 osa-miR2921 Cleavage 5.0 17.038 1 24
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa05LNT0316700.2 5 APAGE1 Physiological trait Eating quality nan nan
Osa05LNT0316700.2 5 qNBL-5 Resistance or Tolerance Blast resistance RZ649 RZ225
Osa05LNT0316700.2 5 QFla5 Morphological trait Culm/leaf RG470 RG346
Osa05LNT0316700.2 5 QPl5 Morphological trait Panicle/flower RG13 RG346
Osa05LNT0316700.2 5 nan Morphological trait Seed RM163 RM31
Osa05LNT0316700.2 5 nan Morphological trait Seed RM163 RM31
Osa05LNT0316700.2 5 nan Physiological trait Eating quality RM163 RM31
Osa05LNT0316700.2 5 qRFC-5 Physiological trait Eating quality RG470 RG474
Osa05LNT0316700.2 5 nan Physiological trait Eating quality RM305 RM178
Osa05LNT0316700.2 5 nan Physiological trait Eating quality RM305 RM178
Osa05LNT0316700.2 5 qRGR-5 Physiological trait Germination/dormancy RM421 RM480
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