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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGGCTTTATGCAAACGGTTGTCGTTCATATCCCGAATTCAATGTCGAGGATTGGGTTCACGAAGAAGATATTTATGATATTGGAGCATACTCTGAAATGgtaagaaactgataacacaatccttcttatattccattgcgcttctgcattacttttcacttctttgtctcatgtgctgagtttttaatttttgaaagattgctgttcattttatttgattgcttcaattatgttccatctcgaaaataccttgtgtttatgtatatttgtag

Basic information

species Arabidopsis thaliana
transcript AT3G05545.1
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|164196133|gb|ES166822.1|ES166822
EST:     ATTGGGTTCACGAAGAAGATATTTATGATATTGGAGCATACTCTGAAATG                         TCTTTTGGAGTTCACTGGTGCCCATTT
genomic: ATTGGGTTCACGAAGAAGATATTTATGATATTGGAGCATACTCTGAAATGgtaagaaact ... atatttgtagTCTTTTGGAGTTCACTGGTGCCCATTT
EST: gi|116447321|gb|EG489913.1|EG489913
EST:     ATTGGGTTCACGAAGAAGATATTTATGATATTGGAGCATACTCTGAAATG                         TCTTTTGGAGTTCACTGGTGCCCATTTGGAAGCTCAGCCCGTCTTCCTTCT
genomic: ATTGGGTTCACGAAGAAGATATTTATGATATTGGAGCATACTCTGAAATGgtaagaaact ... atatttgtagTCTTTTGGAGTTCACTGGTGCCCATTTGGAAGCTCAGCCCGTCTTCCTTCT
EST: gi|116463813|gb|EG506405.1|EG506405
EST:     ATTGGGTTCACGAAGAAGATATTTATGATATTGGAGCATACTCTGAAATG                         TCTTTTGGAGTTCACTGGTGCCCATTTGGAAGCTCAGCCCGTCTTCCTTCT
genomic: ATTGGGTTCACGAAGAAGATATTTATGATATTGGAGCATACTCTGAAATGgtaagaaact ... atatttgtagTCTTTTGGAGTTCACTGGTGCCCATTTGGAAGCTCAGCCCGTCTTCCTTCT
EST: gi|301502796|gb|HO208336.1|HO208336
EST:     ATTGGGTTCACGAAGAAGATATTTATGATATTGGAGCATACTCTGAAATG                         TCTTTTGGAGTTCACTGGTGCCCATTTGGAAGCTCAGCCCGTCTTCCTTCT
genomic: ATTGGGTTCACGAAGAAGATATTTATGATATTGGAGCATACTCTGAAATGgtaagaaact ... atatttgtagTCTTTTGGAGTTCACTGGTGCCCATTTGGAAGCTCAGCCCGTCTTCCTTCT
EST: gi|116485580|gb|EG528172.1|EG528172
EST:     ATTGGGTTCACGAAGAAGATATTTATGATATTGGAGCATACTCTGAAATG                         TCTTTTGGAGTTCGCTGGTGCCCATTTGGAAGCTCAGCCCGTCTTCCTTCT
genomic: ATTGGGTTCACGAAGAAGATATTTATGATATTGGAGCATACTCTGAAATGgtaagaaact ... atatttgtagTCTTTTGGAGTTCACTGGTGCCCATTTGGAAGCTCAGCCCGTCTTCCTTCT
EST: gi|116463809|gb|EG506401.1|EG506401
EST:     ATTGGGTTCACGAAGAAGATATTTATGATATTGGAGCATACTCTGAAATG                         TCTTTTGGAGTTCACTGGTGCCCATTTGGAAGCTCAGCCCGTCTTCCTTCT
genomic: ATTGGGTTCACGAAGAAGATATTTATGATATTGGAGCATACTCTGAAATGgtaagaaact ... atatttgtagTCTTTTGGAGTTCACTGGTGCCCATTTGGAAGCTCAGCCCGTCTTCCTTCT
EST: gi|116421007|gb|EG463599.1|EG463599
EST:     ATTGGGTTCACGAAGAAGATATTTATGATATTGGAGCATACTCTGAAATG                         TCTTTTGGAGTTCACTGGTGCCCATTTGGAAGCTCAGCCCGTCTTCCTTCT
genomic: ATTGGGTTCACGAAGAAGATATTTATGATATTGGAGCATACTCTGAAATGgtaagaaact ... atatttgtagTCTTTTGGAGTTCACTGGTGCCCATTTGGAAGCTCAGCCCGTCTTCCTTCT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTGGCTTTATGCAAACGGTTGTCGTTCATATCCCGAATTCAATGTCGAGGATTGGGTTCACGAAGAAGATATTTATGATATTGGAGCATACTCTGAAATGgtaagaaactgataacacaatccttcttatattccattgcgcttctgcattacttttcacttctttgtctcatgtgctgagtttttaatttttgaaagattgctgttcattttatttgattgcttcaattatgttccatctcgaaaataccttgtgtttatgtatatttgtag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA