\
RiceLncPedia: a curated knowledgebase of rice Long non-coding RNAs
Sequence

>Osa07LNT0386900.1

TGGCATTTCATATAAAACTCAAAACATCTATCCAATCAAGGTGAAATGTTCTGAAATAGGAGCCTAAAGCTTATTATGGCTGATATGCAAAATGATGAATCCAAACTGCCTAACGGTACGGAGTCATTTAAAACCAAGTAATAAAAAAAGGACCTATCCTCTAACAATTAGGATCACAAGACACGTTAGGACGACCGAAATAACCTTGACAGCTGAATTACATTGTTAACTCTTTTTTCACATCGTAAGTGGCTAGACAAAATTAATGTCGCACCAAATAAAACATAGGATGTTAATCGCCAATGGCACCTGAATTTGGCAATGTTAAATACACGATTTCCTCCACTGCATTTACATTCCCCTCACCATGTTTAAACTCAGGACTAAAAGAATAACTCAAGAGCAGATTCGACCACGTGAATGATGGGTACAATTAACTATCATGTCGCCAAACAATATTATAATTTAAATGTTATAATACACCACAATATGGTTGTGCAGCAAGGTTTCTTCTATACTCGGATTATTGAATCTTGATTACTATATATTGTACAAAACCATGCCAATATATAAGCACCAGGTTATGTTGAAGAGCGAATTAGTAGTAAGCGATACCTCCTTGGTTTCCTGCACTTCACACTATTTGAATTCTTATCACAGTACTTCGGAACATCTTTCTCCAATTCAGTTTAGCCCTGAAATAGTTTTGCAGTCGAGTATGTCAGTAATTGAAATATGATGCTGCTCGTACATTGAACCAATTTCTTAAATTTGCCAAATTCAGATTTTTTAAATTGAACCAATAGGTGGACTTATCATCTACTGGAGTAGATGTATTTCTTGATCTCAGTTTGGCAGTAACCAACGTCATTCAGTTTGGATGTTTTCTTTAGTAAATTCACAACTAATAAAAGAACAACAACCAACGGGTTCACATGAGAATTATATATTAATTCTGTACAGCAATGACACATCTGATAAAAAGAACATGACACACAAAAAAAAATGATCTCACAATATTACCAGTCAGATTGGAAATCTGTGTGATATAATGGAAGCAACCAACAGGTGACCACTGAAAACTACACATGAAACAGGTTCAATTCGGAAAGATGGTAGGTTTAATATAGTTACCTAGGGGACATGAGTAAATTACAGCAAATGACAATGCACGTGATCCAAATAAATGGGTAAATGATGAACGCATTTAACTGGAAAATAATGTGAATCAACAGAAAGAATTTTCTTTTGGTGACATTTCTCCTGCCATTATACCTGTATAAAACAGACCTTAGCAGTTGAGCAACTTGTACCTCTAAGTTTATGACTCAATGCTAACCATCTTTTCTTGTTGAGGAAAAAAAAAGCAAAGAACTTCCTAAATAATTTTTTTTAGAAAAATTGTAATCAGATGCCTTTTGTTCAATGGGAAGAAAAACCCAACCTCGTTCAATGCTGAAACCTAAATATTTCTGAACTAACTGTAAAAAAAAAAACATGTTCAGCATCCTCGAGTCTAGTTTGCATATATCTATATCAACACTGGCTACCTCAACCCCATGTAAACACACGAATATGCCAGGCAACAGGATAATGTAGGTGCAGCTTCAATCCAGTACAAATGTTTACTTGACAGCCTGATGAAAGATTTGCAGTTGCAGTTGGAAAATTCACCTTCTCTTGTTGAGGAACAAGGCGCAGAGCCCCTTGAATTGGAGATTCTACCTTCTCAACTGCTCTGCCCTGGCGGAGGCGCTGCGATGAAATTTCTGATCACCGCGGACAGGCGACGGGGATCGGATCACCGCGGAAGGCGTCGGCGGCGACCTGGCGACGGGAGCACCTCGTGCGGCGGGGATCGGTGGAGCAGATCGGTGGCGGCGACCTGGCGACGTGAGGAATTCGTGCGGCGAGGAGGCGGAGGACAGGCCGATGGGGATCTTGGAGGACGAGCCGGCGGCGGGGATTCGATGGCAGATCGGATCACCGCGGAAGGCGTCGGCGGCGACCTGGCGACGGGAGCACCTCGTGCGGAGGGGATCGGTGGAGACAGGCGATGCAGATGACGGCGCGGCGGCTACCTGGCGACGGGAGCACCTCGTGCGGCGGGGTGGCGGAGGACAGGCGATGCAGAGGACGGCGCGGCGGCTGATACGGAGCGGAGCGGTGATGGCGGAGGTGCGGGAGCGGTGTTCTGGCGGAGGGCGGAGGTGCGGGAGCGGTGCGCTGAT

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.123151
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa07LNT0386900.1 osa-miR5079b Cleavage 5.0 17.707 1 22
Osa07LNT0386900.1 osa-miR398b Cleavage 5.0 21.676 1 21
Osa07LNT0386900.1 osa-miR816 Cleavage 4.0 17.704 1 20
Osa07LNT0386900.1 osa-miR1432-5p Cleavage 4.5 11.87 1 21
Osa07LNT0386900.1 osa-miR1875 Cleavage 5.0 12.231 1 24
Osa07LNT0386900.1 osa-miR2275a Translation 5.0 19.074 1 22
Osa07LNT0386900.1 osa-miR2275b Translation 5.0 19.074 1 22
Osa07LNT0386900.1 osa-miR2868 Cleavage 4.5 11.972 1 20
Osa07LNT0386900.1 osa-miR5079a Cleavage 5.0 17.707 1 22
Osa07LNT0386900.1 osa-miR5144-3p Cleavage 4.5 13.965 1 21
Osa07LNT0386900.1 osa-miR5505 Cleavage 4.5 16.893 1 22
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa07LNT0386900.1 7 qCIVG7-2 Resistance or Tolerance Cold tolerance RM336 RM118
Osa07LNT0386900.1 7 grb7-2 Morphological trait Seed RM505 RM336
Osa07LNT0386900.1 7 Ph7a Morphological trait Dwarf RG650 C285
Osa07LNT0386900.1 7 qLCC-7 Physiological trait Source activity R2394 R2677
Osa07LNT0386900.1 7 qLVG7-2 Resistance or Tolerance Cold tolerance RM336 RM118
Osa07LNT0386900.1 7 qCDS-7 Physiological trait Source activity R2394 R2677
Osa07LNT0386900.1 7 nan Resistance or Tolerance Other soil stress tolerance C451 R1245
Osa07LNT0386900.1 7 Ra7a Others Others RG650 C285
Osa07LNT0386900.1 7 QRl7 Morphological trait Culm/leaf CDO497 CDO385
Osa07LNT0386900.1 7 qSDS-7-2 Physiological trait Germination/dormancy RM320 RM234
Osa07LNT0386900.1 7 nan Others Others RZ395 RZ264
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