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

>Osa07LNT0376900.4

GCATTTCTTAGATTAGGGTGCTTGTCAATGGCATTTTATGGATTTTCTCAATAATTATTATCCTTCACTTTTCCCTACACTAAGGCAAAGAAAATGTGTGTACATCAAATTGACTGCCACTATGAAGATGATATTCTATCAGTCGAAAACGCTAAAAAAAATACAATAGCAATGCAAAAGTAAACACCTTTCATCGCTTAAGTTGCCTGAAGTTGAAAGCCATTCAAGATCCATTGTTTGAATCACTTGAATGAATGCAACTTTCAGTTTCAATGCCTGGAACATGATGTATCTGAGGTACCATGGGTGTGTATACCTTAAGTTTGATACCTCACTTTCACAAGTCAATGAAATTTCATTGCCATGTACTGAACCAGATTCCAATACTGGAAATTGTGACCCACTTTTAACATCAAGCGGTGTTGCATTCAACAACTGACGTCTTCATTATGGCAACCACTACATCCAGATATGGATGTGTTGCTTTCACAAAGAATGCTGCCATATGATATCTCTCTTTTTATTGTACTGGTAGGTGGTGCACGGAACGCCACTTTCAAAAGAACATCAAGCACACTATAGAACTCAGTCAACCTCAGAGCACGGAACGCCACTTTTAAAAGAACATCAAGCACATTTATAGGTTTTCTGAAACAAAGATACTTCCGTAATGCACACTATAGAATACTGGCAAATGGGAAATGGGGAAAAAATATATCATTCAATAACCTAGGGAGTTTTCATGAAGATCCCAATGCAAGAACCTCAAATGATTTTCGGCTGGTATGCTCTTGTTTATTATCCTTAACACCATATCAAATTCACGACGAAGTATTGACTCTCGCCTCTCACGTTTTTTCCCATGTGAACAACAAAAATAAATGTGAGAAGGCATTCCAAAATATCATTCATGTCCAGGTATATAAATGTTACACAAGATGCTGCTACTCTGGAATAACAAGGTCAAACTAACCTTAATCAAGTCTAAAAAAAATGATAGGATCTCCATATCTTCTCCTAGGATTCTCAAAATGGAGCCTAGTAGCTTCTTAATTCTCGCCCTTCTGATCCAGTATAATATCAGGTTAATTGTTCATCTTTGATGTCTCCTCTGACCAAAATAGAGGGATTGAACCTCTGTTTTGCACAACAGAACTTGCTTCTGTAGGCCAAGGTCTAGCTCCATACACAATTTGCTCAGTCTCAGCATCATTTGCTACTCAGCCTTTCTCATTCACCCCCATCTTTAAATATCTGGTTCCAGCAAAATGCCTAGAGCGTCTAGCAATGAGTGTGAACATGATGTCCTTCGCAGATATTGAAATTCTGCTTAAAAAATCCATAGACCAACGCAACGGTCCACAAAGTACTTCCAAGAAAATTGTGTATCCCTTGTGTAACACATTCATTCCACACAAAAGTTGACTCATATACGCTCCAGCCTTCCTGTGGATCACTCAAGTTTTTTGAAGACTTGTCATGATATGGTATGAGTAACTGAAAAAGAAGTCCTTTCTAAGATCAAGTGTATTCAGTATCTCCTTGTATCTATCAGAGCTGATATTGTACACGGCACCTTGTTCACAAGAATTTAAGGTACTTGATTGATAGCTTTCCTGATGTCACCAGAATATCGTAAATAAGCGTGCTTGCTAACTTTATTACTTCACTAAGTCCACGTCGATGATGAAGTCCAGCGGGTCTTCATCCCCATCTCCTCTTCCACTCCCTCCACTGCCTTTGTGGACGTTGTCGCCGCCGTTGCTGGCCACCTCTGTCCTTTCTTCTTTGACCGTTATGTTGCTGGATTTGATACCCGTCGGCAGCGCCTCGGTGGCCCGGCTCCACGGTGGAAGAAGTCGGTGGAGGTGCAACAGTCAGGCACTTCAGTAGCTTGTGCTTCATCCTCCCATCCAGATGCTTGTGCTAGCTAAACCCCAATGCAGTGCTAATGACAACCGCATCGTGCTCCTCCGATCCATGCCCGGGGCGATGGAGACCGAGCAGGAAGACGAGGGGCAGGAGGAGCTTCAAGGCCGTCGCCTTGAAGACGCAGCCGCTGCCGTATCTGGAGCTTGTTTGCGCCGCCAGTAGATCCCCCTGCTGTAATGGAACCCGTTTGCCCGATCCGCCACCGATCTGGTGTAGATGGCAGCCGCGCGCGCGGTGAAGAAACTCAGCTTGAGCTCCAACCGACAGAGATCGCACAGAGGCGACGTTGACGGTGGTGGCGGAGGCGGACAAGGCTGCTCTCGACGACGGCGACGGCGACGGCACAAGGGGGAGGCGGAGGTGGCGGCGGTGGAGGTGGACGCGGCGGCGGTGGGGGTGGAGGCGGCGGCGGCGGAGGTGGAGGCGGAGACGGCGGCGTGAGGGGAGGCGCTCAGAAACGGCGCCGGTAGTGGCGGAGGAGGAGGCGCTAGGGTTTGAGGGGCCGGCAACAGCAGCGGGAGTGGTAGTGGCGGCGCGAGGGGGTGGTGGCGGCGCGAGGCGACGGGGGAGGCAGAGGCGGCGGCGGCGGCGGCGCGAGAGAGGGAGCGGGAGAGGGAGAGGGAGCAGC

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.934177
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
Osa07LNT0376900.4 DTM_#DNAt_MULE_japo_Os0335 Chr7 - 13524017 13525163 48
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa07LNT0376900.4 osa-miR5543 Cleavage 4.0 16.463 1 21
Osa07LNT0376900.4 osa-miR5814 Cleavage 4.0 9.256 1 24
Osa07LNT0376900.4 osa-miR2873c Cleavage 3.5 11.219 1 21
Osa07LNT0376900.4 osa-miR394 Cleavage 5.0 17.237 1 20
Osa07LNT0376900.4 osa-miR397b Cleavage 5.0 12.23 1 21
Osa07LNT0376900.4 osa-miR169i-3p Translation 5.0 23.172 1 22
Osa07LNT0376900.4 osa-miR435 Cleavage 5.0 17.502 1 20
Osa07LNT0376900.4 osa-miR1864 Cleavage 5.0 12.383 1 24
Osa07LNT0376900.4 osa-miR2118i Cleavage 4.5 24.347 1 22
Osa07LNT0376900.4 osa-miR1863c Cleavage 4.0 16.57 1 24
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa07LNT0376900.4 7 hwd2 Physiological trait Lethality nan nan
Osa07LNT0376900.4 7 gp7a Morphological trait Panicle/flower R1440 RG128
Osa07LNT0376900.4 7 gw7 Morphological trait Panicle/flower R1440 RG128
Osa07LNT0376900.4 7 tp7b Morphological trait Culm/leaf R1440 RG128
Osa07LNT0376900.4 7 yd7a Morphological trait Panicle/flower R1440 RG128
Osa07LNT0376900.4 7 dth7.1 Physiological trait Flowering RM125 RM336
Osa07LNT0376900.4 7 qah7 Physiological trait Flowering R2401 C1226
Osa07LNT0376900.4 7 nan Resistance or Tolerance Insect resistance RG773 CDO59
Osa07LNT0376900.4 7 qHd-7 Physiological trait Flowering RM125 RM432
Osa07LNT0376900.4 7 nan Physiological trait Flowering R2401 R1440
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