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

>Osa01LNT0004700.1

ACTTCTCTATCGACACACATCACATTAATGTCCATGAGTTAGTGTTACAAATTTCTCTCTGGCTTTGCTTTCTTTGACAATTCGACAAAGCGTCTAAATCTCGACCTTTCTCACATTACAACAACCACAACCTTGTATTAAGCAAGTACAACTGGCCGCCATTCAAAAACAAGTATGGCAGGCCGAACCCTCCAAGTTACCTCAAAGTTACCTCATCATCATCAAGCCTACAACTATGTTACTATTATTAAAAACATTTGTGCTAGTCATACAGCCCCTCTTGTTCCCAGATGTCCACAAGAAAATCAACCATCTCATGTAGAGGGATGGGCTGATGAAACGGCTTATTGGATCCAAGCAAACTCTCATAGGCTGCATTCCAACTATACAAGTAAATGTTTAGGTGAGCATGAAGCTTCAGGTTCAGCATGCATTATACTAAATTAAACACAGTAAGAAGCATTTGAATCCAACATCAATTTGAACAAAAGGAATGGTAGAAGAACAAGAAAAAGTATCCAGTTTATGTTTTGACTTTTAAGTGCGTGTTTTCAGAATCTTTTGTGAAAGATCAACAGCAGCTACCGAATTTGATGATATGTACTTATTATATTGTTTGTAAAAGGAATACCGGACTACACAGGGAAAAAAAATTATACATTAAGGACAGGATGCAAAAACAATGTGATATAGAACTTCAGAATTCATAACACATAATTCATGTAGAAATAAATAAATTGCTGTTGCATGGGCACATGCACCATAATACATATGGGTTAGGATAGGAAAAGAATTGATAAAGTAAAACTTTCATAATCGAGTATCGTTTGAAAAGACAGGAAAAAGTGAAAGAACCCAGCATAACAGAAATCACATTGATCAAAACAACCACCCCAGACTAATCTCAAACTTTGGAACAACAAACTCTAGTTTTCTATGGACTAGGTTGGATTCTGGAAAATATATATTGTCTAGCCCTTTTCTGCATATAAATAGGGAATCTCAAGTTCTTACCTCAATATTGGTTCGCGAATCTGTTTCGTCTCAGGTATTTGCCTTGTTTTCGCAGTCCAGTCCTTCCTAATCTCCTTCCAAAGAACAAGACCATGATTGACAAATTCAGTAGGGCCCTGACTGCTCCCCACTCCTTGCTGATCAAGAGCCCATGACTGTTCGACCTCGATGGTGGTTGTGCTCCAGAGTTCGTCCCCAATGGTGTAATTTTGGTCCGGAGTAATTAAACTCTTTGAAAGCTGTCCTACATGTCTCACAGCCTTATCACAGCATCCAAAACAGCCTCTGCTCCGGAGCAGATGAAGAGGCAGGCGGAGGAGAGGAGCTTCGGGATGCTCCTCCAGTCCCACCCCTCCCCCAAGTCAACACCCCAGTCCCCGACCCTCGACGCCGATCCGCCCTCGCCTCCGCCACCGCCACCGCCACCGCCACCGAGGGCCGCCATGGCGCGCGCCGCATCCACTCGCTGGCTCGATTTCGTCGCTACGAGGCGCCGCTCGCCATGGGGGGATCCCGACCGAGTCGAATCGAATCGAGTGGGGGAATTGGGCGCGGGTGGCGATTGATGGGGAAATTTGGGATAAGGGGAGAGAGGAGGAAGATGGTGAGAGGGAGATGGCGGAGATTGCACGGATTTGACAGAGTGCGCTGCGCT

Coding Potentia
Explanation CPC Score
noncoding -1.06203
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa01LNT0004700.1 1 3720223 T C
Osa01LNT0004700.1 1 3720288 G A
Osa01LNT0004700.1 1 3721373 C T
Osa01LNT0004700.1 1 3722098 A G
Osa01LNT0004700.1 1 3722432 G A
Osa01LNT0004700.1 1 3722482 G A
Osa01LNT0004700.1 1 3722577 G C
Transposon
Transcript ID Transposon ID Chromosome Strand Start End Counts
small RNA targets
Transcript ID MiRNA ID Inhibition Expectation Score Binding Start Binding End
Osa01LNT0004700.1 osa-miR5536 Cleavage 4.5 7.237 1 22
Osa01LNT0004700.1 osa-miR5543 Translation 5.0 10.859 1 21
Osa01LNT0004700.1 osa-miR5837.2 Cleavage 3.5 15.696 1 21
Osa01LNT0004700.1 osa-miR2101-5p Translation 4.5 15.032 1 22
Osa01LNT0004700.1 osa-miR2928 Translation 4.5 15.134 1 20
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa01LNT0004700.1 1 qFLL-1 Morphological trait Culm/leaf RZ543 RG532
Osa01LNT0004700.1 1 qFLP-1 Morphological trait Culm/leaf RZ543 RG532
Osa01LNT0004700.1 1 nan Morphological trait Root RM7383 RM243
Osa01LNT0004700.1 1 nan Morphological trait Root RM7383 RM23
Osa01LNT0004700.1 1 gp1a Morphological trait Panicle/flower RM1 R753
Osa01LNT0004700.1 1 nan Physiological trait Source activity RG532 RG472
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