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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GATACCTTGTTTCTGTGGACTCTTATATGAATCTGCAGgtattgttttgtgctttatttcagttaaattcgttcaccatctaccctttaatatgaatcaacatgccatattcatttgctgtaatttactcgtgtcccctactgctttcag

Basic information

species Oryza sativa
transcript LOC_Os11g43620.2
intron # 3
splice site 5'
intron type U2

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|87018205|gb|CI297418.1|CI297418
EST:     GATACCTTGTTTCTGTGGACTCTTATATGAATCTGCAG                         CTGGCTAATACAGAGGAGTATATTGATGGACAATTCTCTGGAAACCTGGGA
genomic: GATACCTTGTTTCTGTGGACTCTTATATGAATCTGCAGgtattgtttt ... ctgctttcagCTGGCTAATACAGAGGAGTATATTGATGGACAATTCTCTGGAAACCTGGGA
EST: gi|86418484|gb|CI032693.1|CI032693
EST:     GATACCTTGTTTCTGTGGACTCTTATATGAATCTGCAG                         CTGGCTAATACAGAGGAGTATATTGATGGACAATTCTCTGGAAACCTGGGA
genomic: GATACCTTGTTTCTGTGGACTCTTATATGAATCTGCAGgtattgtttt ... ctgctttcagCTGGCTAATACAGAGGAGTATATTGATGGACAATTCTCTGGAAACCTGGGA
EST: gi|117223750|gb|CT842091.1|CT842091
EST:     GATACCTTGTTTCTGTGGACTCTTATATGAATCTGCAG                         CTGGCTAATACAGAGGAGTATATTGATGGACAATTCTCTGGAAACCTGGGA
genomic: GATACCTTGTTTCTGTGGACTCTTATATGAATCTGCAGgtattgtttt ... ctgctttcagCTGGCTAATACAGAGGAGTATATTGATGGACAATTCTCTGGAAACCTGGGA
EST: gi|86537089|gb|CI177295.1|CI177295
EST:     GATACCTTGTTTCTGTGGACTCTTATATGAATCTGCAG                         CTGGCTAATACAGAGGAGTATATTGATGGACAATTCTCTGGAAACCTGGGA
genomic: GATACCTTGTTTCTGTGGACTCTTATATGAATCTGCAGgtattgtttt ... ctgctttcagCTGGCTAATACAGAGGAGTATATTGATGGACAATTCTCTGGAAACCTGGGA
EST: gi|55442446|gb|CV734541.1|CV734541
EST:     GATACCTTGTTTCTGTGGACTCTTATATGAATCTGCAG                         CTGGCTAATACAGAGGAGTATATTGATGGACAATTCTCTGGAAACCTGGGA
genomic: GATACCTTGTTTCTGTGGACTCTTATATGAATCTGCAGgtattgtttt ... ctgctttcagCTGGCTAATACAGAGGAGTATATTGATGGACAATTCTCTGGAAACCTGGGA
EST: gi|55439258|gb|CV732932.1|CV732932
EST:     GATACCTTGTTTCTGTGGACTCTTATATGAATCTGCAG                         CTGGCTAATACAGAGGAGTATATTGATGGACAATTCTCTGGAAACCTGGGA
genomic: GATACCTTGTTTCTGTGGACTCTTATATGAATCTGCAGgtattgtttt ... ctgctttcagCTGGCTAATACAGAGGAGTATATTGATGGACAATTCTCTGGAAACCTGGGA
EST: gi|55439260|gb|CV732933.1|CV732933
EST:     GATACCTTGTTTCTGTGGACTCTTATATGAATCTGCAG                         CTGGCTAATACAGAGGAGTATATTGATGGACAATTCTCTGGAAACCTGGGA
genomic: GATACCTTGTTTCTGTGGACTCTTATATGAATCTGCAGgtattgtttt ... ctgctttcagCTGGCTAATACAGAGGAGTATATTGATGGACAATTCTCTGGAAACCTGGGA
EST: gi|8528391|gb|AU093206.1|AU093206
EST:     GATACCTTGTTTCTGTGGACTCTTATATGAATCTGCAG                         CTGGCTAATACAGAGGAGTATATTGATGGACAATTCTCTGGAAACCTGGGA
genomic: GATACCTTGTTTCTGTGGACTCTTATATGAATCTGCAGgtattgtttt ... ctgctttcagCTGGCTAATACAGAGGAGTATATTGATGGACAATTCTCTGGAAACCTGGGA
EST: gi|15846851|gb|BI795127.1|BI795127
EST:     GATACCTTGTTTCTGTGGACTCTTATATGAATCTGCAG                         CTGGCTAATACAGAGGAGTATATTGATGGACAAATTCTCTGGAAACCTGGG
genomic: GATACCTTGTTTCTGTGGACTCTTATATGAATCTGCAGgtattgtttt ... ctgctttcagCTGGCTAATACAGAGGAGTATATTGATGGAC-AATTCTCTGGAAACCTGGG
EST: gi|163921024|gb|EG710124.1|EG710124
EST:     GATACCTTGTTTCTGTGGACTCTTATATGAATCTGCAG                         CTGGCTAATACAGAGGAGTATATTGATGGACAATTCTCTGGAAACCTGGGA
genomic: GATACCTTGTTTCTGTGGACTCTTATATGAATCTGCAGgtattgtttt ... ctgctttcagCTGGCTAATACAGAGGAGTATATTGATGGACAATTCTCTGGAAACCTGGGA

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GATACCTTGTTTCTGTGGACTCTTATATGAATCTGCAGgtattgttttgtgctttatttcagttaaattcgttcaccatctaccctttaatatgaatcaacatgccatattcatttgctgtaatttactcgtgtcccctactgctttcag

- - - - - - - - - - - - - - - - CTGCAG