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

>Osa01LNT0034900.1

GCCAGTGACAAGAACATTAGTATGGATTCAGTTTTAACTTCTAAAACATGCCACGGGGAAACACTATACTACTACTACTACTACTACTACTACTACTACTACTAGGTGGGAAATACTCAGAATGATGCTACGAGGCCAAGTTTCCAGAGTAAAGATGCCACGGCACCAAAGAGGTTAACCAGACTTAGTTTCACTAGACATCAGGAGCTGCTGATACGGGACGATACCATCCTGTCCTACTAGTATACCAAAAAAAGGGATCGTCATCATCGAATCATCGCCATCAGGAGGGGGGGCATCAGGGCTTGAGAACCAGCGACAGTCCAACCTTGGAGGCCTTGTCGATCGCCTTGGTGTCGACCTCGGCGGAGAGCGTTAAGAAAGACTTGGGTCTCCACTCGTGCTGGATGAGGGCGCTGACCATGCCGTGGTTGTTGTAGCGCGCCTTCACGGTAGTGAGAGGGTCCAGGGCGTGCTGCATCCCGAAGCTGAGGGTGTTCTCCTTGGTCGAGAAGCTGTGGGTCAGCTCCGCTCCAGCAGCCGTACCTGACTCTTTGTTCACCAGATGGTAGTAGGACGCAGTGAGGCTGTCCCCTTTGTTGTTCAGCGTCAGATCAGCAGCAAGATCTGAATTGTTGATGGTCAGTCCAGCATCGTACTTGGTGAAGTCCCCAGTAGAAGTATCAACTGCAACATCAGCACCGACAGCAACAGATTTGTTGCCGAACACACCAGAAAGGTTAACCAAAGGCTTTGAGGTCAGGCCAACACCGAGGCTGATACCAGCGTAGTCATGCAGGTACTGGAGTTCAGCCTTCCCAGCTGTCTGGTATGGAAAAGGAAGTGATACGATTTGCTTCAAGCCTGATACACCAAGGTCTTCAGTTGTGATTGTAGTTAACACCTGAGAATCGGAAGTAGCTTTCACATCCAGCATCACATTATTGCTCTTCAGCTTGGTCTGGATCTCGCTAAAGATAGCTTCATCTTTCATTGTGCTTGCAGCAGTGATTACAACTCCATTGTTGGTGTAGGTGGTCAGGGTAAACTTCTGGTCCGTGTGGAAGTCCTTGTACAGAAGATCTCTGGCCTTCTTGCCGATCTCGAAGTAGAGGCCGGGACCCGGCGCCGCAACGGCAGGAGGGGCGTCCTTCTTGCTGACGTCGGAGTTGAGGCCGGGAGCCGGATCCTCCACGGGAATGCCGGTCTCGGAGTAGACGCCGGGGACCTTGCACTCCGTCTCCGCCTCCATGGCAGGAGGAACGCTTCTGCTCGACTCGATGACTACGCGGCGGCGGCGGCGGCGCGAGGAGCGGGGAGAAATGCGGGCGCGCGGTGGTGGTGTGGGGTTTGGAAC

Coding Potentia
Explanation CPC Score
noncoding (weak) -0.985381
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa01LNT0034900.1 1 29770387 A G
Osa01LNT0034900.1 1 29770861 A G
Osa01LNT0034900.1 1 29772924 T G
Osa01LNT0034900.1 1 29773059 C T
Osa01LNT0034900.1 1 29771708 A G
Osa01LNT0034900.1 1 29770206 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
Osa01LNT0034900.1 osa-miR5526 Cleavage 5.0 23.957 1 21
Osa01LNT0034900.1 osa-miR426 Cleavage 4.5 14.842 1 21
Osa01LNT0034900.1 osa-miR426 Cleavage 5.0 14.89 1 21
Osa01LNT0034900.1 osa-miR1425-5p Cleavage 4.5 11.122 1 21
Osa01LNT0034900.1 osa-miR2101-5p Translation 5.0 14.802 1 22
Osa01LNT0034900.1 osa-miR2118d Cleavage 4.0 21.764 1 22
Osa01LNT0034900.1 osa-miR2118f Cleavage 3.5 21.764 1 22
Osa01LNT0034900.1 osa-miR2118g Cleavage 5.0 21.764 1 22
Osa01LNT0034900.1 osa-miR2118h Cleavage 4.0 21.764 1 22
Osa01LNT0034900.1 osa-miR2118j Cleavage 3.5 21.764 1 22
Osa01LNT0034900.1 osa-miR2118k Cleavage 4.0 21.764 1 22
Osa01LNT0034900.1 osa-miR2118m Cleavage 3.5 21.764 1 22
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa01LNT0034900.1 1 nan Physiological trait Source activity RG532 RM472
Osa01LNT0034900.1 1 An10 Morphological trait Panicle/flower nan nan
Osa01LNT0034900.1 1 brt1d Resistance or Tolerance Drought tolerance C742 C904
Osa01LNT0034900.1 1 rfw1b Resistance or Tolerance Drought tolerance C813 C955
Osa01LNT0034900.1 1 qHUS-1-2 Others Others RM246 RG101
Osa01LNT0034900.1 1 dgl1 Morphological trait Dwarf nan nan
Osa01LNT0034900.1 1 qLRC-1 Resistance or Tolerance Drought tolerance RM237 RM302
Osa01LNT0034900.1 1 yld1.1 Physiological trait Source activity RM5 RG462
Osa01LNT0034900.1 1 nan Morphological trait Root RM3475 RM3494
Osa01LNT0034900.1 1 qCC-1 Physiological trait Source activity C122 R1012
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