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

>Osa01LNT0027900.1

CGCAAAGCCAAATCTACAGAATCTAGGATTGCAACTCGATGTCCTGGATGATCACACCCATCAAATGGGCAAATTTACAAAGCCTCGAACATCAGCGGGGCAGGACAAAACTGGACAAAAACAATCACACCCATCAGGTTGCGACCGGTTAGGACATTAGTCGAGGCAAAGAATGAACAAAATTTCCTGCTGAAAGAATCATCGCCCTAAGTATGTGGTTAAGTGCTACCGATCTACCGTCCTAGTATCATTCAAGCTACCAGCGTCTTCTGGCGGTGGCTTTATATACCTCCCTAAAGTTTTTTGTCGAGCTCTCTTCTTGATTCTCTGGATCTTGTCTTTGCTCTGCTGCTTCCTCCGCTCCTTCTCCTGCTGCCTCATGTTCCGCTCCCGCTCGTACACGCCTTGCCAGAACACTTCGCCGGTTTTCGGCCAGAGCCACCTCCGGTCAGGATGATCCTCGTCGAACTCTTCTGCCAGGTCCTCGTCCATGCTCTTCAGAGTGGCGAGGGAGAACCATTGGATTGACATCTGACCTCTCCTGCCGTTGAGCAGATGTTGCTCCTGCATCGCACCAGTCTCGGGGTCTACATAAACCATCCTCCTTGAACTGTGGAATGCCCAAACGTTTACGATCAACTCAAGAACACGGGAGTAACAGTGTTGGTCCCTGTGAAGACTCAATATGCAATGCCCTGTTTCATGATGTTTGTCGTACATTTGTGCATCCAGAGCATCTACAAACATTCATGATGCTACTATAGCAAGAATTACTTTGACCACATGCCAATTGAAATTGAAAGAGTTTACTTTAGACCGCCCAATATCTGCCCAGGTAATCACAGGCTACGCTTGAGAACATTACAAATTCCAGGAATGATCTCGTAGGCAAAACCCAGCTTTGCATCACAGACCAAGTGTCTCCATCATTAGGCATTAGTGGCAGG

Coding Potentia
Explanation CPC Score
noncoding -1.05353
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa01LNT0027900.1 1 24813984 A C
Osa01LNT0027900.1 1 24814146 A C
Osa01LNT0027900.1 1 24814521 T C
Osa01LNT0027900.1 1 24815264 A T
Osa01LNT0027900.1 1 24813732 G A
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa01LNT0027900.1 osa-miR5793 Cleavage 4.5 13.962 1 21
Osa01LNT0027900.1 osa-miR5816 Cleavage 4.0 19.49 1 24
Osa01LNT0027900.1 osa-miR5822 Cleavage 4.0 20.663 1 21
Osa01LNT0027900.1 osa-miR1431 Translation 5.0 19.071 1 21
Osa01LNT0027900.1 osa-miR5074 Cleavage 5.0 18.219 1 21
Osa01LNT0027900.1 osa-miR5518 Cleavage 4.5 22.049 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa01LNT0027900.1 1 nan Physiological trait Source activity RG532 RM472
Osa01LNT0027900.1 1 brt1d Resistance or Tolerance Drought tolerance C742 C904
Osa01LNT0027900.1 1 rfw1b Resistance or Tolerance Drought tolerance C813 C955
Osa01LNT0027900.1 1 nan Resistance or Tolerance Drought tolerance RM129 RM5
Osa01LNT0027900.1 1 nan Morphological trait Root RM23 RM306
Osa01LNT0027900.1 1 nan Resistance or Tolerance Salinity tolerance RM1 R886
Osa01LNT0027900.1 1 nan Resistance or Tolerance Salinity tolerance RM1 R886
Osa01LNT0027900.1 1 nan Resistance or Tolerance Salinity tolerance RM1 RM5
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