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

>Osa06LNT0361000.1

ACATGTAAACTGCAGCATAAGAAATTCTGGCAATTGCATATGCTATCATGAGTATTCAATCACTTGTTCGAGCTCCTCAGCAAAATTCTGAGCCCAGCGACCAACACAGGCCTGAGTTACAGACTTACGGCCTGATTTGGCCGTTCAGTCAAGTAGGAAATTATAGTATATAAAGGTAAGGTTTAAAGAAAGCAAAAGGGCAGATAACATTCTTCCTTCCGCACAGCAGATTTGTTTTGGCGTTTTTTAGTTATCTGTACATTCAACAGAGCGAACTGTGCTAGAATACTTTTAGGAATCACATTCTTTTCCTACATCAGGTGTACACCGAGTGCTAAAGCTCTGTTTCTTGGTCTTGTAAAAGAAAAAAAAATCCTCAAAGCATCTTCCTTGTTAAGTTTAACTTGTTCATCATCTTGGTGTAGTCCTGGTCACTCGTTGAAGATATGGAGAGCACAAGGACCTACTGATTAAGAACATTTTGGCCCCTCCCTTCGGAGTATGAAACAAGGGAAGCTAGCTTTATAATCAGTTCCAATTCTGTATCTGCAGTCTTGCCCCTTGATCAGAGTGCAGAAGTCAGATAAAAAGGCAGGCATACCATTTCCTCGGCAACATTTTCGTGGATTTCTGCCTTGCACTAATCACAAATGCGGGCAACACCGCCACCACTATTACCATTACTTGCCAGTGTAACCTGATGAAGTTCATTGAGTACCTCAGTAAAATCATCTGGTGGGGGGCATGAGAATTCAAGGATCTTTCCTGAGTGAGGATGCTTAAATCCAAGCAACGCGGCATGGAGACATGGCCTGTCTATCTTTGATATCATATTTGAAAGATCACAATGATATCTTGAAGGAGTTCTGGGTCTCAAAAGTGACAATGCCATGCTTTTGGTACCTCCGTATGTTTCATCCCCAAGAAGGGGAATCCCTAGGTACTTTGCATGTGCTCGAATCTGGTGAGTTCGTCCTGTCTCCAATCTCCACTCTACTAGTGCTGATCCACCACCAGCAAAGACCTCTCTTACTTTATACTAGCGGCATGTCGTGCATATCTATGGCCTGATCCAGGAGTGGCAATCATACGGATCCGGTTGTTAGGATCACGAGCTATAGGAACTTCAATCCTGCCAGAATTCGGATTCGGTGCACCACAAGTAAGACTGATGTACACTCTGCGTATTGTATGCAGCTTGAATTGTTCTGCTAATTGTGCATGAGAATGCTCATCCTTGGCTACAACAAGTAGTCCACTTGTACCCTTATCAAGCCTATGCACGATACCAGGACGCACAAGAGCTTCACGGACTTCTGAACTTACTTCGCCAGTAGTAAATTGATCGATGTCAAACACATCAATATCATCATCTGAAGAATCAGGGCATTCATCATCAATTGAATTACGTGCTAAACAGGTAAATGTTGAAATCTTGCAGTGGTGAAGTATAGCATTGACTAAGGTGCCATTTGCATTTCCTGGTGCTGGGTGAACAACCATATGAGCCGGTTTGTTCACAACGAGAAGATGGTCATCCTCATAAACAATGTCCAGTGGGATGTCCTCTGGCTCTGCTCTCAGTGGCTGCAGCTCCAACACCGTGCAGCTGACAATGTCTCCACCTTTTACCATATGTGAAACCTTGGAGACGGGACGGCCATTGACGACGACGAGGCCGGCGCGGATGCTCGCCTGGATACGCGCGCGGCTGACGCCTCCGCCCCCGAGCCTCGCGGAGATCCACGCGTCGATCCTCGAGCGCCCCTCGCCGGCCGGCACGGCCTCCTCAAGGCGCGTCCCACCGTGGCCTCCCCTCCGGCTCGGCGCCACCGCCTCAGCATTCGCGTCGGCGGCGAGGCATCTGGCGTGCGATGCCCCCACGCAACGGCTGCTTCTCCTCCTCTGTCGCCGCAGCAGGGCGGAGAGCGCGGTCGCGATCGCCGGCGGCGACGCCGCCGCCGTGGTTGCCATGGGAGATGGGAGGGGGAAGT

Coding Potentia
Explanation CPC Score
noncoding -1.1692
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa06LNT0361000.1 6 30481213 C A
Osa06LNT0361000.1 6 30481838 A T
Osa06LNT0361000.1 6 30482359 T C
Osa06LNT0361000.1 6 30482507 A C
Osa06LNT0361000.1 6 30483036 T C
Osa06LNT0361000.1 6 30484610 T C
Osa06LNT0361000.1 6 30484658 T C
Osa06LNT0361000.1 6 30484439 T C
Osa06LNT0361000.1 6 30483484 T C
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
Osa06LNT0361000.1 DTM_#DNAt_MULE_japo_Os0312 Chr6 - 30484323 30484691 368
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa06LNT0361000.1 osa-miR393a Translation 4.5 17.953 1 21
Osa06LNT0361000.1 osa-miR395a Cleavage 5.0 21.221 1 21
Osa06LNT0361000.1 osa-miR399e Translation 5.0 17.605 1 21
Osa06LNT0361000.1 osa-miR399f Translation 5.0 17.605 1 21
Osa06LNT0361000.1 osa-miR399g Translation 5.0 17.605 1 21
Osa06LNT0361000.1 osa-miR399k Translation 4.5 17.605 1 21
Osa06LNT0361000.1 osa-miR393b-5p Translation 4.5 17.953 1 22
Osa06LNT0361000.1 osa-miR413 Translation 4.5 18.74 1 21
Osa06LNT0361000.1 osa-miR413 Cleavage 5.0 21.231 1 21
Osa06LNT0361000.1 osa-miR395o Translation 4.0 24.455 1 21
Osa06LNT0361000.1 osa-miR395w Cleavage 5.0 21.221 1 22
Osa06LNT0361000.1 osa-miR1441 Translation 4.0 17.092 1 21
Osa06LNT0361000.1 osa-miR5499 Cleavage 4.0 12.9 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa06LNT0361000.1 6 qREP-6 Resistance or Tolerance Other soil stress tolerance nan nan
Osa06LNT0361000.1 6 nan Morphological trait Root RG653 RG433
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