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

>Osa06LNT0332600.1

AAAAAGTCTCATTTCTCAGGGCAGTCTTTGCATGGGGCATTGATTGACCTGAACAAGTGTGGTCTGATTGGAGTGGGCTGGTAGAAAAGCAGTTGAAAAGTTGGGCACATTGGACCTACCGCCCAGTACCGACCTGTCCGAGCCTCGGAGACACGAAGTGGATGTGCTGCTGCGTGACGACGACCGGGCGACCATGACGCCGCACGCCTCCGCACCGAGCCACTCGTTGATGGCGCTGTATGCCAAATTCCTCGGCGTTAGCGGTCAAGCGAGCTGGGCTGGGGTGAGCGTGGTTGGTTGGTACAAATCGCGTTTGAAGTTTCCGAAGCTGCAGACAGATTACTCAAAGTAGAGACGCAGCGAAAATTGAAGCTGATTCCTGCTAGTTTTTGTAAGTTCCTCTTGAATTTAGCCCGTTTCTCTTCCTGCTTGAACTGCCCCGGAAAAATAGACAGAATCCTTCCTGGAAGATTGGAAGTAGACAGAATCAGGCGTCCTGGCCATTAGTCCATTACCTCCATACGAGAGTCTCCATGACCAGTTGAGAGAGGCTCTCTGTCCAACCAATGCTCTGTTACTTTCATCTGTAAAGATGAAAGGGAATTTCATTGCTGGAGACTGCTCCATCTTCCATGGAATCCCTCAATTCAGTGCCACCCATTCGTCACTGCTGATCCACTCCTTCTCTATTTCCTTGCTGTGAAGCAGTCCGCTGATCTGTTTTTGCACTGCATACGCTTCGCTGAAGCTGGAACTCGATCAACCTGCTACCTCTAGGACTAGGAGTACTCCGACCATGGCCACTCCGACTAACAGCGATCACCTCCGGTTTGCCGAGCAAACTGTAAGCCTCTCTGTAACCTTTCCAGTGCGTCGATCTCCCACTCCAGCAACTGCCATATATATCTCCGATTTCTCCTAGCTTTCCTGTAGCACTGCATCCTGAGCTCCAGAGTCCATAAACGCTTGCTCATTTCCTCTCTTTCCATACGCCTGCAGCTTGATCACCGGTGCCATTGCATGAACACACGCTCTCTCTCTCTCTCTCTCAAGAGTTTGCCCAGGTGTTTGTGTGTAGAAATTCTACAGAAGACCCGGTGCTCAAAGGTTGTGC

Coding Potentia
Explanation CPC Score
noncoding -1.17983
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa06LNT0332600.1 6 5088751 C G
Osa06LNT0332600.1 6 5088816 A G
Osa06LNT0332600.1 6 5088837 A G
Osa06LNT0332600.1 6 5088862 A G
Osa06LNT0332600.1 6 5089462 T C
Osa06LNT0332600.1 6 5091286 C G
Osa06LNT0332600.1 6 5091292 A C
Osa06LNT0332600.1 6 5091316 A C
Osa06LNT0332600.1 6 5091503 A G
Osa06LNT0332600.1 6 5091813 C T
Osa06LNT0332600.1 6 5092622 T C
Osa06LNT0332600.1 6 5092770 T C
Osa06LNT0332600.1 6 5092777 A G
Osa06LNT0332600.1 6 5093411 T G
Osa06LNT0332600.1 6 5094129 A G
Osa06LNT0332600.1 6 5094460 G A
Osa06LNT0332600.1 6 5095035 A G
Osa06LNT0332600.1 6 5096146 A G
Osa06LNT0332600.1 6 5096647 A T
Osa06LNT0332600.1 6 5097145 T G
Osa06LNT0332600.1 6 5097240 T A
Osa06LNT0332600.1 6 5097433 C T
Osa06LNT0332600.1 6 5097621 G A
Osa06LNT0332600.1 6 5091999 T G
Osa06LNT0332600.1 6 5095557 A G
Osa06LNT0332600.1 6 5090540 A T
Osa06LNT0332600.1 6 5090541 A T
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
Osa06LNT0332600.1 DTM_#DNAt_MULE_japo_Os0084 Chr6 - 5089946 5090616 670
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa06LNT0332600.1 osa-miR1850.1 Translation 4.5 9.804 1 21
Osa06LNT0332600.1 osa-miR5145 Cleavage 5.0 20.25 1 24
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa06LNT0332600.1 6 nan Morphological trait Panicle/flower RG138 RZ398
Osa06LNT0332600.1 6 nan Physiological trait Source activity RG138 RZ398
Osa06LNT0332600.1 6 nan Morphological trait Seed RG138 RZ398
Osa06LNT0332600.1 6 qLW-6 Morphological trait Seed RM217 RM111
Osa06LNT0332600.1 6 qSPTF6 Physiological trait Sterility RM217 RM111
Osa06LNT0332600.1 6 alk6-1 Physiological trait Eating quality RM190 RM253
Osa06LNT0332600.1 6 hr6 Physiological trait Eating quality RM190 RM253
Osa06LNT0332600.1 6 qRCT6b Resistance or Tolerance Cold tolerance R1954 RM253
Osa06LNT0332600.1 6 rrsd6b Resistance or Tolerance Drought tolerance RM253 RM314
Osa06LNT0332600.1 6 Ps-4 Others Others nan nan
Osa06LNT0332600.1 6 QGt6b Physiological trait Eating quality RM253 RM314
Osa06LNT0332600.1 6 amy6-1 Physiological trait Eating quality RM3 RM217
Osa06LNT0332600.1 6 asv6-1 Physiological trait Eating quality RM3 RM217
Osa06LNT0332600.1 6 AsTol Resistance or Tolerance Other soil stress tolerance RZ516 RG213
Osa06LNT0332600.1 6 qRCRJ-6 Physiological trait Source activity RM217 RM402
Osa06LNT0332600.1 6 qLDLJ-6-1,2,3 Physiological trait Source activity RM217 RM3
Osa06LNT0332600.1 6 nan Morphological trait Seed RG138 RZ398
Osa06LNT0332600.1 6 nan Morphological trait Panicle/flower RG138 RZ398
Osa06LNT0332600.1 6 nan Physiological trait Source activity RG138 RZ398
Osa06LNT0332600.1 6 qASV6-1 Physiological trait Eating quality RM111 RM314
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