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

>Osa06LNT0332300.1

GAGTCACATGCAGCAGAGATATTGTAATATAGGATATTCAGCCTGAATTCTTACATGAGTTTGCAAAATAAAATGCAATATCATCCCAATATAAAAAAATTCAACTCTACAGAGCTCTTGTATATACGGTTCCAAGGGTTCACAAAATCAAGTCCGAGTTCCGTTATAAGGTCTACTGTATGCTACAACGAATTGGCTTGAATAGCTTGTCGGGAGGAGGGTGAAAGGCAGCTGAAGTAGTCGCTTGAATGGGCAGATACGGGATACAAGTCACCAAAGCATCTCTTGATATCTCTTGATCCAGAATCTACCTAAATTTTCGGTTTTTCTTGCACCAGTGTGGTAATGCAGGCCCAGCTTCCTTAGTTTAGTGCAGTTACCATATCTTGTTCTTCAACCAAAAGAGCATCAAAACTACACCGATCACAATGGCAACAGGGGCATACTTCCGAATCAAGGCCTGGCGATTGAGATCCTTAGCCTTATCTGCATAGATTCTTGTGTCAGAAGTCAGCCTAGTTGACATTTCAGTGACCTGGTCTAGCTTTTCACCGACACCAAGAACTTCTTGAACATTACGAGTCATAATTTGATGCACCTCATAGAGCTCATCATTTAATTTCGCAAGATTCCTCTGGGTTCTAGTATCCAAATAGAGTTTCTTAGTCTTCTGAATGAATGTGTCAAACTTAATAAACGCATACGGCCTTGCAGCTGTTTCGATTTGACTGCCGTTGACTCTTTCGAATTCATTTCTCAGATCTTCTAGGTACTGGAATGCGAGTTTCTTTGGATAAGAACGGTCACACATAGTCAGATAGCATACTCGCCCCTCAATGATGTAATGAAAATAGTATGGCCCAGTCTCAATTGACATCCGCGAGGCTTCATGTTGCCCCTTTGATAAGTTTTTGAATAGAAGTTTAGCTTGCTGCTTGTAAAAGTCAGCGTCCTTCTGATCCCGTCCATCATCCAACCCTTCTGCCAGTGGAAGGCCATCAGTAACACGTGCTATCATTGTCAGCTTCACCATTTTGTCAAGAAATCCAGAAACCAGTGCAAACTACACCAAAATACCGAAAGAACAGGAAGGGATCGAGGCGGTTGAAGGGGGAGGCGACGCGGTGGCCGTCTCCGGCGGGGAGAGCCGAAGAGATCGCGGCCGCGGAGTCGCCGGAGCCCGGAGGACGCGGATGCTTCGACAGCCCCACCGTTCCGTCTTCTTCACTTCTTTTTTTTCTTTTTTTTTTTGATAAGCTT

Coding Potentia
Explanation CPC Score
noncoding -1.20065
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa06LNT0332300.1 6 5012782 C A
Osa06LNT0332300.1 6 5013057 A T
Osa06LNT0332300.1 6 5014082 G A
Osa06LNT0332300.1 6 5015887 G A
Osa06LNT0332300.1 6 5016177 T C
Osa06LNT0332300.1 6 5016429 G A
Osa06LNT0332300.1 6 5016491 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
Osa06LNT0332300.1 osa-miR393a Translation 5.0 18.108 1 21
Osa06LNT0332300.1 osa-miR393b-5p Translation 5.0 18.108 1 22
Osa06LNT0332300.1 osa-miR426 Translation 4.5 18.519 1 21
Osa06LNT0332300.1 osa-miR444a-5p Cleavage 5.0 13.588 1 21
Osa06LNT0332300.1 osa-miR2873a Cleavage 4.5 15.866 1 24
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa06LNT0332300.1 6 alk6-1 Physiological trait Eating quality RM190 RM253
Osa06LNT0332300.1 6 hr6 Physiological trait Eating quality RM190 RM253
Osa06LNT0332300.1 6 qRCT6b Resistance or Tolerance Cold tolerance R1954 RM253
Osa06LNT0332300.1 6 rrsd6b Resistance or Tolerance Drought tolerance RM253 RM314
Osa06LNT0332300.1 6 QGt6b Physiological trait Eating quality RM253 RM314
Osa06LNT0332300.1 6 amy6-1 Physiological trait Eating quality RM3 RM217
Osa06LNT0332300.1 6 asv6-1 Physiological trait Eating quality RM3 RM217
Osa06LNT0332300.1 6 Xa7 Resistance or Tolerance Bacterial blight resistance nan nan
Osa06LNT0332300.1 6 AsTol Resistance or Tolerance Other soil stress tolerance RZ516 RG213
Osa06LNT0332300.1 6 qASV6-1 Physiological trait Eating quality RM111 RM314
Osa06LNT0332300.1 6 qLDLJ-6-1,2,3 Physiological trait Source activity RM217 RM3
Osa06LNT0332300.1 6 qRCRJ-6 Physiological trait Source activity RM217 RM402
Osa06LNT0332300.1 6 nan Morphological trait Seed RG138 RZ398
Osa06LNT0332300.1 6 nan Morphological trait Panicle/flower RG138 RZ398
Osa06LNT0332300.1 6 nan Physiological trait Source activity RG138 RZ398
Osa06LNT0332300.1 6 nan Morphological trait Panicle/flower RG138 RZ398
Osa06LNT0332300.1 6 nan Physiological trait Source activity RG138 RZ398
Osa06LNT0332300.1 6 nan Morphological trait Seed RG138 RZ398
Osa06LNT0332300.1 6 qLW-6 Morphological trait Seed RM217 RM111
Osa06LNT0332300.1 6 qSPTF6 Physiological trait Sterility RM217 RM111
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