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

>Osa01LNT0025100.1

CGTTGAAAAGATTTATTGCGACGCTTTATTGCTTATTCAAATATGGTACAGTTTCAGAATTTCAGTTCCAAACCAATAAATCAGAAACAATACTGAAATACTGAATGCACACATCACAATGGCCAACATCCAGGATTCTTCAGATGGGGATAATATGGCAACTTCAACAAGCTTATAAATGGTCTATAAGTGTACAGAAACAACCCATCACAACTCAATTCATCTTATGCCGACGAGTTATCCCCATCCTCACTGGATGTAATGAAATCCACCACGGCATCAGAAAGCTCTTTACGGTGAGCAGTGTAGCAGTGATTTGCTCCCTCGATGACATGTAGCTTGTGGTTCGGTATATGCTTCGCGAATTCGTATGCATCTTCCACAGGAATGATCTCATCGGCTGAACCGTGAACTGTGAAAAACCTGCATTCTTTGCTGATGGAAAGGCATGCTTTATGCATATCAGTGGTCAATCGTTCCATCAAACTCTCTTTTGTTACCTTATATAAAACCTTTCCTGAGTTGGTTTTGACATCAATGTAACCCTCTTTGTCAATTATATTCATAAACTCTTTGCCTAGCCGTTCTTCAATGCCTTTCTCCAAATGAAATCGACCAGAGAGATTAACCACTGTGCGCACATCGTCATAGATAGAGGCATACAGAACCACCACATCTCCTCCTTTGCTGTGACCAACAATTGCTTTCACATCATATTTCTCCTGATTAAGATGTGAAATAACAGAATGCAAGTCATCAGCCTCCTTTCTGTAGTTCCCGTACTGGAATTCCCCTTCACTTTCTCCATTTCCACTGAAATCGAAGCGGAAGATTCCAACCCCTTTCTTGGTAAGTGCATTCGCTAGATCAACAATGATGCTATCATTCTTGGAAGCTGTAAAGCCATGGCAGATCACTACAATCTTGTTGGAACCCATGTGCTGCAGCAACCCAACGAGTTTCTCTCCATGTTTATTCGTTACCACTACCCTTTCTTCCTGAGCAGCTGTTTAGAAACCATATAATAGAGTTAGAGCCCCATTGTTTCGCTTATGCTTATGCATATAAGCCAAATTTTAAAAGTTAAAACAACGAGAGGCCCTTAATTATTATATCGGAGTAACATAATCTTCTTCTCCTTTTCTTCCCCTTCTTTTCGTTGGCCAAAACATCATTGAATTATATACACACAAAAAGAACGCCCTCTTGTCCGTCAGCTAGCAATAGGGAACCGATGAACCCTGGGAAGAGGAGGAGAGCGGCTCCGCCATGGCTGCCGTATGGCAGCGGCGGCGGCGGTGGCGTGCTCCGGATTGGATCGGAGGATTCCCGGGGGTGCCGCAGCGAAGAGAGGGGGGAAGAGGGATCGCCGAATCTAATCGGAGAGTTGGTTTGGGTAGCTAAAGAACTGT

Coding Potentia
Explanation CPC Score
noncoding -1.18971
Genome Browser
Expression
Variation
Transcript ID Chromosome Locus Ref Alt
Osa01LNT0025100.1 1 22439059 T G
Osa01LNT0025100.1 1 22439615 A T
Osa01LNT0025100.1 1 22439713 G A
Osa01LNT0025100.1 1 22440138 T C
Osa01LNT0025100.1 1 22440442 G A
Osa01LNT0025100.1 1 22440544 A G
Osa01LNT0025100.1 1 22440816 A T
Osa01LNT0025100.1 1 22441080 A G
Osa01LNT0025100.1 1 22441093 G C
Osa01LNT0025100.1 1 22441550 A T
Osa01LNT0025100.1 1 22441963 T 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
Osa01LNT0025100.1 osa-miR6252 Cleavage 5.0 17.065 1 23
Osa01LNT0025100.1 osa-miR810b.1 Cleavage 4.0 17.775 1 21
Osa01LNT0025100.1 osa-miR1440a Translation 4.5 16.867 1 20
Osa01LNT0025100.1 osa-miR2100-3p Cleavage 4.5 7.624 1 22
Osa01LNT0025100.1 osa-miR5161 Translation 4.5 16.628 1 20
Osa01LNT0025100.1 osa-miR2919 Cleavage 4.0 9.409 1 19
Osa01LNT0025100.1 osa-miR5488 Translation 4.5 17.053 1 21
Osa01LNT0025100.1 osa-miR5496 Cleavage 4.5 19.615 1 21
QTL
Transcript ID Chr QTL Gene Character Major Character Minor Marker Interval1 Marker Interval2
Osa01LNT0025100.1 1 nan Physiological trait Source activity RG532 RM472
Osa01LNT0025100.1 1 qVB-1 Morphological trait Culm/leaf RZ776 RZ744
Osa01LNT0025100.1 1 qVB-1 Morphological trait Culm/leaf RZ776 RZ744
Osa01LNT0025100.1 1 brt1d Resistance or Tolerance Drought tolerance C742 C904
Osa01LNT0025100.1 1 rfw1b Resistance or Tolerance Drought tolerance C813 C955
Osa01LNT0025100.1 1 nan Resistance or Tolerance Drought tolerance RM129 RM5
Osa01LNT0025100.1 1 nan Morphological trait Root RM23 RM306
Osa01LNT0025100.1 1 nan Resistance or Tolerance Salinity tolerance RM1 R886
Osa01LNT0025100.1 1 nan Resistance or Tolerance Salinity tolerance RM1 R886
Osa01LNT0025100.1 1 nan Resistance or Tolerance Salinity tolerance RM1 RM5
Osa01LNT0025100.1 1 qNVB-1-1 Morphological trait Culm/leaf R2159 C178
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