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

>Osa04LNT0286100.1

GAGCACCAATCAATCATGAAATATTTTGCTTTCTTTCAGAACATCTCCTCTCCTCGACGAACATAAAAAAGGAGGCTAATGGAAGAGCTAACGGAGTAATATTTACTGATCCATGATAGATGAACCAAAGAACAGTCAAAAATTAAATGGCGGCTTCAGCTCAATTTCGACCGCCCATTGTGTTGTCTAATTTTATCCTTTTTGATCCCTTTTGCTTCTGATGATCTTTTCTTGTTGGGGCTGACGCATCATGTAGGAATGTGCAACTAGCACCATTTCGACAACCCTTCGGGCTGTTAAAGTATGCACACGGTTTCATCGGCCTCACCTTGCCATCTCTGCTCACCATAGCAGCAGCACCGTTCATGGCATCAATACCGCCATTTTGTGGAGGACCAGGTTGGCGGTACATACCAAACTGCATTCCATGCTGCTCAAATGGTTGTTCCAGTCTCTCCCCTCCATGCTGATGGATGAGGGTTTTATAATAGCCGACACCCCTCCCTGGAACACTTCCAAAGTTCACTGATGGGCTTGAACTTGGCAGGGCACTTCCAAAGTTCATTGCTGGGCTTGAACTTGGTGGATGATTCATAGCAACTGAAGGAATGGTTGAAGGTGGCCGATTCATCATTGGTGGTGGAGGCGGCAGGGTAGGATTCATGCCATGAAAGGTTCCGACATGATCAGAGAAGGGGGCAGGAGAGCTTGCAGTTATTTGGGGTGGTGGGATTGATACCAATGGGGCAACAACAGAACTACTAGCTGATTGTTCATGTCTGACTGGGCCACATTCTTTCATTAACCTCTGAAGCTGTGAAGGATCACTTAGTATTTTGAAGAGTAGTTCCTGGTCAATCGTGCTCCCGTTTTGGTCAGCCATGCTCCCATTTTGATTACTCTGTATGGTTTGCATAATTGCAGTGACTGTTGCTGAGACTGCAGCCTGAGGCTCAATGGTGAATCCAGAACTTATAGCACCACCACATGGTGGTTGTTGCTCAGCGGAAACAGGAGTATTTGAAACTCCTGTTATGTTGTAATGGCTTGGTAGATCAAGGGTTGGTCCTTCCAATTGATCAGATGCATCATCATCTTCAAGAGGGATCAAAGGAACCAACAGGGTTTTGGAATCGTCATAATGGGCATCTTTCACATCAAGAGAAAGAAATGGGTTTGGCGGAATGTTCGATGGACGTGGGTAAATTGCCTCAAGCGCTCCATTTATTCTCTCATTTTGAATTTCAATCTCCCTACTTTCTTCTCCAGCAACAATATGCCAATCCTGCTCCAATACTATATGTGGGGGGCATTTCCACCTAATTAGGGGGATTTGAGACATGTCAATTTTGAGGTCATTGCTTGGCGGCAATGACTCAAAGCCTGGAGGCAAGGAATCATCTGAGCTTGGGCCAGCTGCATGCAGTAACCATGAGCCTTTTGCTTGGAGATTATCCTGCGGTCTTAATCCAGCTTGAGAGGGGGAATCCTCTGACAGGAAAAGCCTTACCTTGCAGAGATTGCCTCCGGAGGCCCATGAAACGCGCCTGGATCGCCTCGACCCCATCATTACTCTCCAAACCCAAGCAACCAATCCGAACCGATCCGATCTACAGCGCGGGAAACCCTAGATAGGGTGGGGCGGGCGATCGACGGACGGACGAACGAGCGGAAAAGCCGGCGGCGGGTTCCCGACCCCGAGATCGGGACGGTTTGGGGTTTCCTCCTGCTTCTCCCCACTCCCTCCCTCGCCGTCGCTCCGGTGGCGGCGGCGGCGGCGCAAGCGGAGCGGCCGAGGGGAGGGTTGGATTTGGAGCGGAAGAGGGACGGGAGGTGGTGAGGCGGA

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.86972
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa04LNT0286100.1 4 33850625 G A
Osa04LNT0286100.1 4 33852281 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
Osa04LNT0286100.1 osa-miR5525 Cleavage 4.5 23.313 1 22
Osa04LNT0286100.1 osa-miR5525 Cleavage 4.5 21.711 1 22
Osa04LNT0286100.1 osa-miR5794 Translation 5.0 19.133 1 21
Osa04LNT0286100.1 osa-miR166c-5p Cleavage 4.0 19.856 1 20
Osa04LNT0286100.1 osa-miR1850.1 Translation 3.0 10.42 1 21
Osa04LNT0286100.1 osa-miR2092-5p Cleavage 5.0 13.957 1 21
Osa04LNT0286100.1 osa-miR2907a Cleavage 5.0 22.337 1 22
Osa04LNT0286100.1 osa-miR2907b Cleavage 5.0 22.337 1 22
Osa04LNT0286100.1 osa-miR2907c Cleavage 5.0 22.337 1 22
Osa04LNT0286100.1 osa-miR2907d Cleavage 5.0 22.337 1 22
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa04LNT0286100.1 4 rpf4.1 Resistance or Tolerance Drought tolerance RG214 RG620
Osa04LNT0286100.1 4 gpps4.1 Resistance or Tolerance Drought tolerance RG214 RG620
Osa04LNT0286100.1 4 tgwt4 Morphological trait Seed RG143 RG214
Osa04LNT0286100.1 4 np4 Morphological trait Panicle/flower RG143 RG214
Osa04LNT0286100.1 4 tgwt4 Morphological trait Seed RG143 RG214
Osa04LNT0286100.1 4 np4 Morphological trait Seed RG143 RG214
Osa04LNT0286100.1 4 nan Morphological trait Panicle/flower RG143 RG214
Osa04LNT0286100.1 4 nan Physiological trait Source activity RG143 RG329
Osa04LNT0286100.1 4 gpp4 Morphological trait Seed RZ569 RZ565
Osa04LNT0286100.1 4 nan Morphological trait Panicle/flower RG620 RG214
Osa04LNT0286100.1 4 QGn4 Morphological trait Panicle/flower RG143 RG214
Osa04LNT0286100.1 4 QGwp4 Physiological trait Source activity RG143 RG214
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