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

>Osa05LNT0317400.2

AACCTCTGTCCGAATCATAACAACATTCCAACAAAAGCTCAAAGCGGCACAACAAGGAGACACGAACCTCAAAGATCAAACAACCCTATACCCTGGCGACGGTGGCAAAAGGGAGAACTTGAAGTAAGAAGAAATGTGCAATTAAATTCCTATGGTGTCACCTAGGGTTCATTCCGACGCCGTGTAGTTAATAGCGGATAATATCACTCAAGATGCTAAAGAAGTGGTTGATATCTATCTTTTCCTCTCCACCATAGACTGCTTCCGCGCTTCCTCCTGATGGCCCTTGTGCAGCCATCTCAACGAGTGTGTACAGCTTCTTGATTGGCATATCGTCCAGTGCTTCTGCAGCCGCATCAATGTCCGCTTCATCGAACACATTGAGATGCCGCAACACCTTTGTAGCATCCTCCTTTTTCAGTTTGGGGACATGGTATGTCACGGAGAACACGTCGCACATACCAATGGATTCTAGAAAGCCTACTTCACTTGTTGTTCCAATAACAAGCAAGTTCTTGCCCTGCAAAGAAGAAAGCAGGTGAGGAAAAAGGTGGTTTCCTTCAAAAAAAAAAAAGGGAAATGGCAACAGCTGTGTAGCATCAATGTCCGACGTCCGAGAAGTGAAACAGTCCATGTACTGCGCTGAAGGATGCTACTAAAGAACAAATGTGATTATGTAAACCTTAGGACTTTGGAGGAACCCTCTAGATGATGTAATCAAGTATTATGCTCAGGATAATACTGAAGAGCAGCAACATGCAAACCTTAGGAGGAACCCTCTTGAGAAGGACTAGTAGAGTTTGTGAGATTATGTTTGAAAAGCGTGGTCCAATGGCAACATATTCCAGTAACCTTTCGATGTCATCTAGAATTATGATGCCAAACTGAGATTTGTATGCATCCTCAAAAACCTTGCAAATCTGTGCACATTTGCTGCTTTCACTGAAACCAATCATTGTCTCTGCTGATATAATTTTGACGTAAGCAAAATCACTGTCAATGCCAACAGTAGCAGCCAAAGCCGATTTACCACTTCCAGCAGGACCTTCCAAGAGGCATGTCACAAGTGGACTACCTTTGCTAACTTTAACTTGCTCAACAAGAAGCATACCTCTCTCATACAAGTGCCTATGTGCCTTGCCACAATCAACCATACCCCTTAGCCTGCATCTTTCAAGGTCATCAGTGGAAGCACCAAATGCAGGGGTAATTTCATGAAGTGCATTCACAAAATCATCCATAGTAACCTTAATGCTTTCTTCATCCAAAGGCTTGGTAAGGTCATCCATGCTTATCTGCCTGTTCAAAGCATATGAGACTGCACTTTTGACGACACCTTCCAGCTCTGCTCCACTGTAGTTCTTTGTCCGTGCAGCTAGCTCCTGAAGATTAACATTCGGGGAAAGGAAAGAGC

Coding Potentia
Explanation CPC Score
noncoding -1.17564
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa05LNT0317400.2 5 25782597 G A
Osa05LNT0317400.2 5 25782722 T G
Osa05LNT0317400.2 5 25783719 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
Osa05LNT0317400.2 osa-miR171c-5p Cleavage 4.5 19.459 1 21
Osa05LNT0317400.2 osa-miR171c-5p Cleavage 5.0 16.781 1 21
Osa05LNT0317400.2 osa-miR5071 Translation 4.5 12.597 1 21
Osa05LNT0317400.2 osa-miR5519 Cleavage 5.0 15.051 1 21
Osa05LNT0317400.2 osa-miR5519 Cleavage 5.0 17.331 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa05LNT0317400.2 5 qRGR-5 Physiological trait Germination/dormancy RM421 RM480
Osa05LNT0317400.2 5 QFla5 Morphological trait Culm/leaf RG470 RG346
Osa05LNT0317400.2 5 qNBL-5 Resistance or Tolerance Blast resistance RZ649 RZ225
Osa05LNT0317400.2 5 QPl5 Morphological trait Panicle/flower RG13 RG346
Osa05LNT0317400.2 5 qRFC-5 Physiological trait Eating quality RG470 RG474
Osa05LNT0317400.2 5 nan Morphological trait Seed RM163 RM31
Osa05LNT0317400.2 5 nan Morphological trait Seed RM163 RM31
Osa05LNT0317400.2 5 nan Physiological trait Eating quality RM163 RM31
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