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

>Osa01LNT0044200.1

AAAGGTATATCACATTACAGATCTGTTCCATTACCAAGCCTAAACTATTGAAGAAAGATCCTACTATGCTAGCTGCAATATCTAATTCTACATATTCCATCGTGGATGTGGTCTGGTTCCAGACGCTTTGGTGCAGATGATTTACAGTTATGAATAGTTTTGGACACGATTCCCTGGAACCAAATTGCAGGCTTGCAAACTACTCGTCAGCAACCGTGCGCAATTTCAACCTTCTGTGAGGCTGACCAGTGCCTATGGCGTTTCAAAATTTCAGGCACTACTCGTTGTAATCTACCTGGAACCTCACCCTTCAAAATCTGTTATGCCGTGGAAGTATGTTAGGTTTAAGAACTGGCAACCTTCTTCTTCCTGGAGTGGCAGAAGTTAGTTATCTCTTCCTCATTCTTCGGACCGAGTCATATATCGGACGGAATAAAATGCTAGAGATATATCTTTCTCCAAAGCTGGGGAAAATAACCGCAATCAATTTTCCAGCATTTTCAGGTCTTTTAGCGACGTTAATAGCAGCAACTGTGGCAGCACCTGACGAAATGCCAACCAGCAGGCCCTCTTTTAGTGCAAGTTCCCTTGCAACATCGACTGCCTCTGTGGTGGTAACCTTCACAACTTCATCAAGCAGCTGAACATCTAATATGCTTGGAATATAACCAGCATTATCACCAGAGATTACACTAGTTTCAGCAGGTTCTACCCCAATAACCTTAATATCTTTGTTCATCATTTTCAGATAACGCCCAGTGCCTGTAATGGTGCCACCTGTGCCAATGCTTGCAACTAGTATGTCAACAGTACCCAAGGTGTCTTCCCATATTTCTGGGCCTCACTATTAGCGGAATTGTTAAACTGCTGAAACATGTATGCATTTGGTGTCTTCGAAACAATTTCCTCTGCTTTATCAAGAGCTCCTTTTAGTCCCTTGTTAGGATCAGTTAACACAATCTCAGCTCCAAATGCACGTAGAAGAACACATCTCTCAACATCTATTGATGAAGGTACAGTTGCTATTAGCTTGTATCCCCTAGCAGCAGCCACAGAAGCTAGGCCTATACCAGTATTTCCAGTAGTTGGTTCAACCAAAATGGTCTTGTTTGGAAAAATTAATCCTTTCTCTTCAGCATCATTAATCATGCTTAATCCAATCCTGTCTTTGACGCTCCTGCAAGGTCCCATGTACTCAAGTTTTGCAGCGATATTAGCAACACATCCGTCGACAACATTATTCAGATACACCATTGGGGTTTTCCCAATCAGCTGGGTGACGTCCTGCGCAATGTTCACCGCATCAACATCGTCCACGTACTCCTCGGGGATCTCGACGGCGGCGGGTGCCGCGGCCTTGGGAGATGAGGAGCCCGCGGCGAGGGGTCGGCGAGGCGGGACGGGACGCGGGGAGGCGAGGAGGAAGAGAGGCGCGCGCGGGGCGGAAACGGAACCGTAGGCGGCGGACACGGTGGAAATGGCGGTGGCGCCGGCCGAGAGCGAGAGGAGGAATGGGCAAGCGGGCGGCGACGCCATCGCCATGGCCATGGCCCCGACGCTTCGGCTGAGGAGGAGAGGTGGCGCTGCGCCGCTGCGGGGGGTTTT

Coding Potentia
Explanation CPC Score
noncoding -1.11911
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa01LNT0044200.1 1 34647234 A T
Osa01LNT0044200.1 1 34647552 C T
Osa01LNT0044200.1 1 34647915 C G
Osa01LNT0044200.1 1 34648040 A G
Osa01LNT0044200.1 1 34649159 T C
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa01LNT0044200.1 osa-miR5812 Translation 4.5 8.515 1 24
Osa01LNT0044200.1 osa-miR166e-3p Cleavage 5.0 23.018 1 21
Osa01LNT0044200.1 osa-miR444b.2 Translation 4.5 22.167 1 21
Osa01LNT0044200.1 osa-miR444c.2 Translation 4.5 22.167 1 21
Osa01LNT0044200.1 osa-miR2098-5p Cleavage 5.0 22.762 1 20
Osa01LNT0044200.1 osa-miR2103 Cleavage 5.0 19.967 1 22
Osa01LNT0044200.1 osa-miR2104 Cleavage 4.0 15.362 1 22
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa01LNT0044200.1 1 An10 Morphological trait Panicle/flower nan nan
Osa01LNT0044200.1 1 qLEJ-1 Morphological trait Shoot/Seedling RM212 RM297
Osa01LNT0044200.1 1 brt1d Resistance or Tolerance Drought tolerance C742 C904
Osa01LNT0044200.1 1 rfw1b Resistance or Tolerance Drought tolerance C813 C955
Osa01LNT0044200.1 1 Pi35(t) Resistance or Tolerance Blast resistance RM1216 RM1003
Osa01LNT0044200.1 1 qLRC-1 Resistance or Tolerance Drought tolerance RM237 RM302
Osa01LNT0044200.1 1 nan Resistance or Tolerance Insect resistance RM543 RM472
Osa01LNT0044200.1 1 dth1.1 Physiological trait Flowering RG541 RG109
Osa01LNT0044200.1 1 sf1 Morphological trait Seed RG374 RG394
Osa01LNT0044200.1 1 ng1 Morphological trait Panicle/flower RG374 RG394
Osa01LNT0044200.1 1 sf1 Physiological trait Source activity RG374 RG394
Osa01LNT0044200.1 1 ng1 Morphological trait Seed RG374 RG394
Osa01LNT0044200.1 1 nan Physiological trait Source activity RG374 RG690
Osa01LNT0044200.1 1 nan Morphological trait Root RM212 R2417
Osa01LNT0044200.1 1 nan Physiological trait Source activity RG532 RM472
Osa01LNT0044200.1 1 nan Resistance or Tolerance Drought tolerance RG690 RG810
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