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

>Osa05LNT0316200.2

AACTATGAATCTAACACAAATCATTCACATATAACTTCAGGGAGGCACACCCTCTTCACAGCAAATGTATTGCGTGTAAATGTGTACTCTTTCTGGCTACATGATTCAACTCAGGGCAATTTCCCTTCAAAAGAAGGAAAATTGCTTGCTAGGGCTTTTAGGACATCCTGATAATTACAAGAGCTGTATGATGATGATGAATACTACAGTGACGACAACACCTGGCCGTGGTGAAGGAATCAGATGTGGATCCAAAGATCCTTACAAGGCTCGCTCTGTTGTTAAGAGGATATATATTCACATGCGATCGGCCCGCAGTGGAGGTTAACATCTTGGATCAAGAATTTCCGATGAGTGAGGTTTTGCTTTATGATTTGTTCAGACCAGGGTCAGCTTTAAATTCATCCACTCGGAATGCAGCCTCTTGATCCCAAGGACCAATCAAATGGGATTCAAAATCTGACTGTGTCACATCCCGTACCGAATCAGGTGACAGGTTGTCCATCTTGGGTTTCTTTGGAGATGGCTGCATGCTATCTGGGTAGTCATCTAAGCTTGGTGGTGAATGCGGTAGCTTCTGCTCCTCACAAGCTTTGAGTGATCCACCGAGCTTTTGCTGCTCCTCTATGATCATCTGCAAGTACTTCCCTTGTGCTTCAATTCTCAGCTGCAGCTGCCTTTGCACCTCAAGTTGTTCATGGAGTCGCTTCTGGACCTCCATTTGCATCTTCAAAGCTTCATTGATTTGCATTCCTGGTGCAGAATCTGTGTTAGAGAGGGAATCGCTAGAATCCTTCTTTTCGTCTTTTGAGCCTTCAGCAGGAGATTCTGGTATGTACTTTGCAAGGCGATATTTCTGCAAATGGCTCTTCACATGATAAATTGTGATCCCAGGAACACCCATTACAGTGAGAACCCCTTTAGGTGTTGCTCCCACTATCAGGTCCACCAAGCTGAGCAATAGCATCCACAAAGCGGTTATGGAGATCTGAGGTCCAACGTAGCCGTTGTTTCCCACTCCCTGCAGGATTAGCAGGGCTGCCCATGTTTGACCCGCCAAAAGCTCCAATATTACTCATATGCTCGTTACTCTGTGTACTCTGCGGTCCAAAGGGTACAGAGAACTTCTTTGCATGGTACATCATGAGAATGCTTACCGGCACGGCGAGGCAGCGATCCGCCGCCGGCCGCCGCCACCACCACCAAAAAGCGGGCAGCGCAGGGGAACCAGATGCTCTCCTCTGCTGCTTCCGCTTCCGCCGCCGTCCGAGGGGGGATTCCCAGTTGGGAATTGGGGGGGTCAAAAAGGGAAGGAAGGAGGCGACGCGAGGAGAGGAGAGGAGGGGAAAGCGGCGGGGGGCGGTGGTGTCCGGCGAAAGCGACGCGCGGGGAGGGGAGAGCGAGAGAGAGAGAGGAGAGGGAGGCCTTGGGATTTGGGGGGATTTTTTTTTTTTCTCTTTCTTTCTTT

Coding Potentia
Explanation CPC Score
noncoding -1.06662
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa05LNT0316200.2 5 24156624 G A
Osa05LNT0316200.2 5 24154303 A G
Osa05LNT0316200.2 5 24154813 A G
Osa05LNT0316200.2 5 24156350 A C
Osa05LNT0316200.2 5 24156684 A G
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa05LNT0316200.2 osa-miR7695-3p Cleavage 4.5 23.126 1 21
Osa05LNT0316200.2 osa-miR156c-3p Cleavage 4.0 18.779 1 22
Osa05LNT0316200.2 osa-miR156g-3p Cleavage 4.0 18.779 1 22
Osa05LNT0316200.2 osa-miR319a-3p.2-3p Translation 4.5 18.895 1 20
Osa05LNT0316200.2 osa-miR319b Translation 4.5 18.895 1 20
Osa05LNT0316200.2 osa-miR169q Cleavage 5.0 16.943 1 21
Osa05LNT0316200.2 osa-miR530-3p Cleavage 1.5 17.91 1 21
Osa05LNT0316200.2 osa-miR1847.1 Translation 5.0 13.996 1 21
Osa05LNT0316200.2 osa-miR2097-3p Cleavage 5.0 10.239 1 22
Osa05LNT0316200.2 osa-miR2103 Cleavage 4.0 22.188 1 22
Osa05LNT0316200.2 osa-miR2118a Cleavage 4.5 15.382 1 22
Osa05LNT0316200.2 osa-miR2118b Cleavage 4.0 15.382 1 22
Osa05LNT0316200.2 osa-miR2118c Cleavage 4.5 15.382 1 22
Osa05LNT0316200.2 osa-miR2118e Cleavage 4.5 15.382 1 22
Osa05LNT0316200.2 osa-miR2118f Cleavage 4.5 15.382 1 22
Osa05LNT0316200.2 osa-miR2118g Cleavage 4.0 15.382 1 22
Osa05LNT0316200.2 osa-miR2118h Cleavage 5.0 15.382 1 22
Osa05LNT0316200.2 osa-miR2118i Cleavage 4.5 15.382 1 22
Osa05LNT0316200.2 osa-miR2118j Cleavage 4.5 15.382 1 22
Osa05LNT0316200.2 osa-miR2118k Cleavage 5.0 15.382 1 22
Osa05LNT0316200.2 osa-miR2118l Cleavage 4.5 15.382 1 22
Osa05LNT0316200.2 osa-miR2118m Cleavage 4.5 15.382 1 22
Osa05LNT0316200.2 osa-miR2118n Cleavage 4.0 15.382 1 22
Osa05LNT0316200.2 osa-miR2118p Cleavage 5.0 15.382 1 22
Osa05LNT0316200.2 osa-miR2118q Cleavage 4.5 15.382 1 22
Osa05LNT0316200.2 osa-miR2118r Cleavage 4.5 15.382 1 22
Osa05LNT0316200.2 osa-miR2924 Translation 4.5 21.869 1 21
Osa05LNT0316200.2 osa-miR2930 Translation 5.0 9.823 1 22
Osa05LNT0316200.2 osa-miR2930 Translation 5.0 22.072 1 22
Osa05LNT0316200.2 osa-miR2930 Cleavage 4.5 18.194 1 22
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa05LNT0316200.2 5 qNBL-5 Resistance or Tolerance Blast resistance RZ649 RZ225
Osa05LNT0316200.2 5 QPl5 Morphological trait Panicle/flower RG13 RG346
Osa05LNT0316200.2 5 QFla5 Morphological trait Culm/leaf RG470 RG346
Osa05LNT0316200.2 5 nan Morphological trait Seed RM163 RM31
Osa05LNT0316200.2 5 nan Morphological trait Seed RM163 RM31
Osa05LNT0316200.2 5 nan Physiological trait Eating quality RM163 RM31
Osa05LNT0316200.2 5 qRFC-5 Physiological trait Eating quality RG470 RG474
Osa05LNT0316200.2 5 qRGR-5 Physiological trait Germination/dormancy RM421 RM480
Osa05LNT0316200.2 5 nan Physiological trait Eating quality RM305 RM178
Osa05LNT0316200.2 5 nan Physiological trait Eating quality RM305 RM178
Osa05LNT0316200.2 5 nan Resistance or Tolerance Drought tolerance C43 RZ70
Osa05LNT0316200.2 5 nan Resistance or Tolerance Drought tolerance C43 RZ70
Osa05LNT0316200.2 5 APAGE1 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