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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATCATATCAGAGACTAACCGCCGTGAGATCTCCAAGTACCTCTTCAAAGgtaccattttgatttgagcttatgaatctagttgtcttctacgttaatgggtttatgcatgatgattgattggttgattcaagagaattgtacttagaaatggttggaattggttctttttgtgtgcagag

Basic information

species Arabidopsis thaliana
transcript AT5G41520.2
intron # 2
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|47831362|gb|CK121046.1|CK121046
EST:     ATCATATCAGAGACTAACCGCCGTGAGATCTCCAAGTACCTCTTCAAAGAG                        
genomic: ATCATATCAGAGACTAACCGCCGTGAGATCTCCAAGTACCTCTTC-AA-AGgtaccatttt ... gtgtgcaga
EST: gi|124953707|gb|EL028864.1|EL028864
EST:     TATCAGAGACTAACCGCCGTGAGATCTCCAAGTACCTCTTCAAAGAG                        
genomic: TATCAGAGACTAACCGCCGTGAGATCTCCAAGTACCTCTTC-AA-AGgtaccatttt ... gtgtgcaga
EST: gi|116471696|gb|EG514288.1|EG514288
EST:     ATCATATCAGAGACTAACCGCCGTGAGATCTCCAAGTACCTCTTCAAAGAG                        
genomic: ATCATATCAGAGACTAACCGCCGTGAGATCTCCAAGTACCTCTTC-AA-AGgtaccatttt ... gtgtgcaga
EST: gi|116406681|gb|EG449273.1|EG449273
EST:     ATCATATCAGAGACTAACCGCCGTGAGATCTCCAAGTACCTCTTCAAAGAG                        
genomic: ATCATATCAGAGACTAACCGCCGTGAGATCTCCAAGTACCTCTTC-AA-AGgtaccatttt ... gtgtgcaga
EST: gi|163976375|gb|EL979175.1|EL979175
EST:     ATCATATCAGAGACTAACCGCCGTGAGATCTCCAAGTACCTCTTCAAAG                         A
genomic: ATCATATCAGAGACTAACCGCCGTGAGATCTCCAAGTACCTCTTCAAAGgtaccatttt ... gtgtgcagag-
EST: gi|163976375|gb|EL979175.1|EL979175
EST:     ATCATATCAGAGACTAACCGCCGTGAGATCTCCAAGTACCTCTTCAAAG                         A
genomic: ATCATATCAGAGACTAACCGCCGTGAGATCTCCAAGTACCTCTTCAAAGgtaccatttt ... gtgtgcagag-
EST: gi|125023008|gb|EL095277.1|EL095277
EST:     AGACTAACCGCCGTGAGATCTCCAAGTACCTCTTCAAAGAG                        
genomic: AGACTAACCGCCGTGAGATCTCCAAGTACCTCTTC-AA-AGgtaccatttt ... gtgtgcaga
EST: gi|116471706|gb|EG514298.1|EG514298
EST:     ATCATATCAGAGACTAACCGCCGTGAGATCTCCAAGTACCTCTTCAAAGAG                        
genomic: ATCATATCAGAGACTAACCGCCGTGAGATCTCCAAGTACCTCTTC-AA-AGgtaccatttt ... gtgtgcaga
EST: gi|124804253|gb|EH892168.1|EH892168
EST:     TCATATCAGAGACTAACCGCCGTGAGATCTCCAAGTACCTCTTCAAGGAG                         GGTGTTTTGTTTGCTAAAAAGGATTTCAA
genomic: TCATATCAGAGACTAACCGCCGTGAGATCTCCAAGTACCTCTTCAA--AGgtaccatttt ... gtgtgcagagGGTGTTTTGTTTGCTAAAAAGGATTTCAA
EST: gi|47827937|gb|CK117621.1|CK117621
EST:     CCGCCGTGAGATCTCCAAGTACCTCTTCAAAGAG                        
genomic: CCGCCGTGAGATCTCCAAGTACCTCTTC-AA-AGgtaccatttt ... gtgtgcaga
EST: gi|116476370|gb|EG518962.1|EG518962
EST:     ATCATATCAGAGACTAACCGCCGTGAGATCTCCAAGTACCTCTTCAAAGAG                        
genomic: ATCATATCAGAGACTAACCGCCGTGAGATCTCCAAGTACCTCTTC-AA-AGgtaccatttt ... gtgtgcaga
EST: gi|116406665|gb|EG449257.1|EG449257
EST:     ATCATATCAGAGACTAACCGCCGTGAGATCTCCAAGTACCTCTTCAAAGAG                        
genomic: ATCATATCAGAGACTAACCGCCGTGAGATCTCCAAGTACCTCTTC-AA-AGgtaccatttt ... gtgtgcaga
EST: gi|116471734|gb|EG514326.1|EG514326
EST:     ATCATATCAGAGACTAACCGCCGTGAGATCTCCAAGTACCTCTTCAAAGAG                        
genomic: ATCATATCAGAGACTAACCGCCGTGAGATCTCCAAGTACCTCTTC-AA-AGgtaccatttt ... gtgtgcaga
EST: gi|125013900|gb|EL086169.1|EL086169
EST:     GATCATATCAGAGACTAACCGCCGTGAGATCTCCAAGTACCTCTTCAAAGAG                        
genomic: GATCATATCAGAGACTAACCGCCGTGAGATCTCCAAGTACCTCTTC-AA-AGgtaccatttt ... gtgtgcaga
EST: gi|164107587|gb|ES170828.1|ES170828
EST:     TATCAGAGACTAACCGCCGTGAGATCTCCAAGTACCTCTTCAAAGAG                        
genomic: TATCAGAGACTAACCGCCGTGAGATCTCCAAGTACCTCTTC-AA-AGgtaccatttt ... gtgtgcaga
EST: gi|116471744|gb|EG514336.1|EG514336
EST:     ATCATATCAGAGACTAACCGCCGTGAGATCTCCAAGTACCTCTTCAAAGAG                        
genomic: ATCATATCAGAGACTAACCGCCGTGAGATCTCCAAGTACCTCTTC-AA-AGgtaccatttt ... gtgtgcaga

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATCATATCAGAGACTAACCGCCGTGAGATCTCCAAGTACCTCTTCAAAGgtaccattttgatttgagcttatgaatctagttgtcttctacgttaatgggtttatgcatgatgattgattggttgattcaagagaattgtacttagaaatggttggaattggttctttttgtgtgcagag

- - - - - - - - - - - - GAGATC