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

>Osa04LNT0274000.2

CAGAATCAGGCAATCAGGACACTAGTAAATTGAAAGCAAGTTTACAGTTGTACCAACAGATACCGATGCGCAAACTTCTTAACTGCATAAGCTCTCCAAGCTCGCGACTAACTTGCAACTTAGTGTTAAGGAGATGAGTTATTGACTGTGTATGGTAGCCAGCCAATCTGAAGCACGCAATTACAGAATATACCAGATCCTAGGATGAATTTGCTATGCGGACTGCGGTAGTGTAGAACATGTGAGCAAACGCATCAGAAAATGCAGACAACAAATCAATTCTTAAGAAAGAAAAGGCCTAACGAAACAGAACTAGACAAGCTCATCTATCTCTTCATGATATACCCCAGTAGAATTCCCAGAAGAGCAACGACCACCACGAACACAAAAGGGAAACCACCATTCTGCTTGCTAATTTCCCTCCTCACAAGGTCCATCTCCTCGAGAAGCTTATTGTTCTGCTGAATAGCAGAGTTTCTTTCTTCTGTCAATCTTGAAATCAAAGCAGATGTCTCAGAATCAGATGTTACATCTTCTGCATCCTTGTGTGCTCTTGTAGCAGATAGCAATGGTGGCTCATCAGATTCCCGAGTTGTATCTTGATAATTCAAGTTGCCCCCTTCTGATAATGAAGCCCGAGGAGACGAGCCTTCTTCAGATCCCTCACGCACGGGGGATGGTGGTCGTGGTGGTTGGACATAGACAACCTTCAACTTCCTCTCATCCACCACATTACCTGATCCTTTGTTAAACTAGAAAAGGTACACATGTTGGCATCATAGGAACTAGGAAGTTAGAAACAAACATCAAGCAACATAATCAAGAATCAACCATCTGATAGACATTAGAACATGAACTACCATCTCTCCAGTGACATCCTTGGTTGTTGTGCCTTCAGTCACCACAACGCTCTGCACTAGAAACTTGTCTTTGCACTGCATGTCTGCTGGTGCCTCCCGTTGGGCTTGCATTGTTACGATGACATCGCTGGTGGACCGTGGCGGCACAATGCCACTGTTCGGCCTGACGCAGTACTTCTTTGGGCTAGTTGTCTTGACCTTAAAGGCGATGTAGTCATCTGTTCTGTTCGTCAGCTGCATGGAGCATGAGATCTGCTTCTTCGTCTCGAAGGAGAACCGGAGCTCGAGCGGCTCGATCCCGAGCAACTCCTTGGAGTCGGAGCCCATCTGCCGCCAGCCAACCCACTCGAACCGAAGAGGGGAATGCTCGCTCGAACTCGAGATGCGCTTGATCCGGAGCGGGGAGCTAGTAGTAGCTAGGGTTTGGGTTTGGGGGAGTGAGTGAGTGATGAGTGGGTTTCCGTGCTTGCTTGCCTGGAGGAGCGGACGGGAATTTTGGAGTCGCGGATGGGAAGAGCACGAGGGAATGTCGGGTTGGTGTG

Coding Potentia
Explanation CPC Score
noncoding -1.24427
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa04LNT0274000.2 4 26713283 A T
Osa04LNT0274000.2 4 26713687 C T
Osa04LNT0274000.2 4 26713723 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
Osa04LNT0274000.2 osa-miR5535 Cleavage 5.0 17.376 1 22
Osa04LNT0274000.2 osa-miR6256 Translation 4.5 18.962 1 22
Osa04LNT0274000.2 osa-miR156a Cleavage 5.0 13.161 1 20
Osa04LNT0274000.2 osa-miR156b-5p Cleavage 5.0 13.161 1 20
Osa04LNT0274000.2 osa-miR156c-5p Cleavage 5.0 13.161 1 20
Osa04LNT0274000.2 osa-miR156d Cleavage 5.0 13.161 1 20
Osa04LNT0274000.2 osa-miR156e Cleavage 5.0 13.161 1 20
Osa04LNT0274000.2 osa-miR156f-5p Cleavage 5.0 13.161 1 20
Osa04LNT0274000.2 osa-miR156g-5p Cleavage 5.0 13.161 1 20
Osa04LNT0274000.2 osa-miR156h-5p Cleavage 5.0 13.161 1 20
Osa04LNT0274000.2 osa-miR156i Cleavage 5.0 13.161 1 20
Osa04LNT0274000.2 osa-miR156j-5p Cleavage 5.0 13.161 1 20
Osa04LNT0274000.2 osa-miR164a Cleavage 4.0 21.942 1 21
Osa04LNT0274000.2 osa-miR164b Cleavage 4.0 21.942 1 21
Osa04LNT0274000.2 osa-miR156k Cleavage 4.0 13.161 1 21
Osa04LNT0274000.2 osa-miR164c Cleavage 4.5 21.942 1 21
Osa04LNT0274000.2 osa-miR164d Cleavage 4.0 21.942 1 21
Osa04LNT0274000.2 osa-miR164e Cleavage 4.0 21.942 1 21
Osa04LNT0274000.2 osa-miR172c Cleavage 3.5 8.906 1 21
Osa04LNT0274000.2 osa-miR164f Cleavage 4.0 21.942 1 21
Osa04LNT0274000.2 osa-miR1430 Translation 4.0 19.206 1 21
Osa04LNT0274000.2 osa-miR1854-3p Cleavage 4.5 18.422 1 22
Osa04LNT0274000.2 osa-miR3981-3p Cleavage 5.0 16.619 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa04LNT0274000.2 4 qPH1-4-1 Morphological trait Dwarf RM241 C2807
Osa04LNT0274000.2 4 nan Resistance or Tolerance Other soil stress tolerance RM5586 RM3916
Osa04LNT0274000.2 4 gpp4 Morphological trait Seed RZ569 RZ565
Osa04LNT0274000.2 4 rfw4a Resistance or Tolerance Drought tolerance RM349 RM1136
Osa04LNT0274000.2 4 qChlab4-1 Morphological trait Shoot/Seedling C2807 RM241
Osa04LNT0274000.2 4 qChla4-1 Morphological trait Shoot/Seedling C2807 RM241
Osa04LNT0274000.2 4 pss4.1 Physiological trait Source activity RZ740 RZ590
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