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

>Osa07LNT0394200.1

CCTTTCTGAAACTTGTCAGGTAAATATATGGGCCATTGATCACAGAGCTGAAGGATCAGCAGAATACTATCAGTATCCTTTAGGCAAAGCTATTAACAATTATTATTATTGTACAACAAAACATATGCTGACAGCCTGATCATGAACCCAGTAGACTGGTGCATGCTCCACAGGCAAATTATAGAAAAATGTCAAGAATAGTACTCTTCAGGTTTCAATAGTACAGATCACGCTGCCTCCATGTTTGCAGCAGCGCCTACATCGCCAATCATCCTTCAGGCTGTAGCACTTGCTTAAATTATAGTAGTAACATGTTCTACAATTGTCACACGATTTCTTCAATATACATCACGTTGTCTCCTGGAAAGATTGAGATCGAGATAGAGCTGCTGGATTCGCCTGCAGGACTCGTGCAGCACCGGATATCTGCTCCCTGCTTTCAGGTTTCGACTGGAATGATCTGAACATGCTACGGTCACCAGGTTCAATGCCAAGGGTTGTCCAGATTGAGCTCTTTGCAGCTTCGTCAGGATCATCGATCCGAAGCGTTTTCGGAATCCACAAGTTTTTCTCTGCCTTGTCATCTCCTTGCGGTTTGGAGTCCCTGGAGTGCTTTCCTAGGACAGGAGAGCCGTTGTCTGAACATGTACTAGTGCTTGTAGGAGATGAAGCTGACACGCTGCAATTAGGTTGAATCCATGGCGAGCTCCATGCACCATTTGGCCAGGGAGAAATGAAGGGCCAAACTGAAGATGGAATTACCGGAAAGTATCCTGGTACCGGCATCACTGGTGGCATGCTCCACTGAACACTAGCTGTGCTTCCATTGTCTGAAGAATTTGCTGGTTCAGCTGGTGCTGTGCATACCGGTGGTGCCATGGCAGGAATGCCATTCCATGCTGGACTCCATGGGTACACAAAAGGAGGACCAGGGAAGCATGGTATGGGATGCATGGGAGGGACTCCACTATGCCCAACAATTCCATTTTGATGCCCACTAACTGCTCCATTAACTGGTTCATTCCGGGGACTATCTGAAGTTGTTCCTGAAGCCGGGCAGGTCTGGGTTTCTCCATTTCTGGGTTGTGCTGTTGAGGTAGGCTTGGCATTCTTACTCTGCTCTCCAATTTTCAGCACAGAGGCCATGGAATTACAGAGTGGGGAATCAGGTGCAAATTTAACTGCCGTTGCTGTTTGATCTCCTTTTATAGAGAGTTGATAGAGGGGAGCATCTCCAGCAGGAGCAGCTAGATTGCTGCCCGTGATTAATATACTGCGGTAATTTGCAGTGGAGCTCTTACTCTTGCGCCTACCAGCACCAACAGGGAGGTTCCTCATGCTTCCACCTGCCGTCCAATATCTCTGACAACTCTTGCAAAAATGTCTTGGCTGGTTAATGTTGTAGTTGTTGTAGTAGCAGAACTTTGTATCCATGCTGTTGCAACGAGGACAAGGCAGGATCTTGTCTGGCTTCTTCAGGACCTTCTCTTCACTCGATCCACCACCCTCTGTTTGAGCTGCCTCAGATTTGGACTCTGATCCAGTCATTTCATCATTGCTAGGTGTTTGATTCTCACACTCGCTGGAACTATTAAAGCTAGAACTATTCATCTGATCAGCATCTAACTCCTGATCTGTGCATGGCTTTTCTTCACTGATCCTCATGTCTCCTGTATCCTCACATGAATCCTTACTGACCAAGAACTGAAGCAGCTAACACACGGATGGATGTTGTTCCAAACAACTTTACCAATTACAAACAGTCGCACGCGCACGCAAGAACAAAACACTTCTCCGGCGTCTGCGGGGGCGGAGGCACGTGGGATTCCGGCGGCGGCGGCGGCGGGTGAGGAGGGGAGGCGGCGGCGAGGTCGTCCATGGAGATGGTACATGGGCGAGAGAGAGAGGGAGAGAGAGAGAGAGAGAGAGATCCGAC

Coding Potentia
Explanation CPC Score
noncoding -1.15143
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa07LNT0394200.1 7 29078920 A G
Osa07LNT0394200.1 7 29077790 T C
Osa07LNT0394200.1 7 29078577 G A
Osa07LNT0394200.1 7 29079292 A G
Osa07LNT0394200.1 7 29080197 T C
Osa07LNT0394200.1 7 29080345 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
Osa07LNT0394200.1 osa-miR5535 Cleavage 4.5 15.022 1 22
Osa07LNT0394200.1 osa-miR5512b Translation 4.5 11.651 1 21
Osa07LNT0394200.1 osa-miR1428e-5p Cleavage 5.0 21.601 1 22
Osa07LNT0394200.1 osa-miR1428f-5p Cleavage 5.0 21.601 1 22
Osa07LNT0394200.1 osa-miR1428g-5p Cleavage 5.0 21.601 1 22
Osa07LNT0394200.1 osa-miR396f-3p Translation 5.0 12.868 1 24
Osa07LNT0394200.1 osa-miR395x Cleavage 5.0 11.12 1 21
Osa07LNT0394200.1 osa-miR395x Translation 5.0 18.832 1 21
Osa07LNT0394200.1 osa-miR3979-5p Translation 5.0 16.895 1 20
Osa07LNT0394200.1 osa-miR5512a Translation 4.5 11.651 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa07LNT0394200.1 7 qDTH-7 Physiological trait Flowering S10832 RM1306
Osa07LNT0394200.1 7 nan Morphological trait Seed RM118 RM248
Osa07LNT0394200.1 7 nan Resistance or Tolerance Drought tolerance RZ978 RG351
Osa07LNT0394200.1 7 S23(t) Physiological trait Sterility R1789 C213
Osa07LNT0394200.1 7 qPLLN7 Physiological trait Sterility RM234 RM172
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