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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gccttgtctgactagatgacattagagactactgggtctgtagcatatactatactgtgtactctttaatgcattctcacctgcatcttaaatgtttcagGTCTAGGATGGTCATATCCATGTGATTTGTGGAGTGTTGGATGTATTCTCATCGAACTATGCTCG

Basic information

species Glycine max
transcript GLYMA06G08480.2
intron # 7
splice site 3'
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|9985118|gb|BE659226.1|BE659226
EST:     TAGCTCCATTGTTTCTACAAGGCATTACAGAGCTCCCGAGATTATTCTAG                         GTCTAGGATGGTCATATCCATGTGATTTGTGGAGTGTTGGATGTATTCTCA
genomic: TAGCTCCATTGTTTCTACAAGGCATTACAGAGCTCCCGAGATTATTCTAGgtaactaagt ... aatgtttcagGTCTAGGATGGTCATATCCATGTGATTTGTGGAGTGTTGGATGTATTCTCA
EST: gi|193529120|gb|FK484311.1|FK484311
EST:     TTACAGAGCTCCCGAGATTATTCTAG                         GTCTAGGATGGTCATATCCATGCGATTTGTGGAGTGTTGGATGTATTCTCA
genomic: TTACAGAGCTCCCGAGATTATTCTAGgtaactaagt ... aatgtttcagGTCTAGGATGGTCATATCCATGTGATTTGTGGAGTGTTGGATGTATTCTCA
EST: gi|193585084|gb|FK539449.1|FK539449
EST:     TAGCTCCATTGTTTCTACAAGGCATTACAGAGCTCCCGAGATTATTCTAG                         GTCTAGGATGGTCATATCCATGTGATTTGTGGAGTGTTGGATGTATTCTCA
genomic: TAGCTCCATTGTTTCTACAAGGCATTACAGAGCTCCCGAGATTATTCTAGgtaactaagt ... aatgtttcagGTCTAGGATGGTCATATCCATGTGATTTGTGGAGTGTTGGATGTATTCTCA
EST: gi|208256104|gb|GE054441.1|GE054441
EST:     TAGCTCCATTGTTTCTACAAGGCATTACAGAGCTCCCGAGATTATTCTAG                         GTCTAGGATGGTCATATCCATGTGATTTGTGGAGTGTTGGATGTATTCTCA
genomic: TAGCTCCATTGTTTCTACAAGGCATTACAGAGCTCCCGAGATTATTCTAGgtaactaagt ... aatgtttcagGTCTAGGATGGTCATATCCATGTGATTTGTGGAGTGTTGGATGTATTCTCA
EST: gi|13481114|gb|BG510457.1|BG510457
EST:     TAGCTCCATTGTTTCTACAAGGCATTACAGAGCTCCCGAGATTATTCTAG                         GTCTAGGATGGTCATATCCATGTGATTTGTGGAGTGTTGGATGTATTCTCA
genomic: TAGCTCCATTGTTTCTACAAGGCATTACAGAGCTCCCGAGATTATTCTAGgtaactaagt ... aatgtttcagGTCTAGGATGGTCATATCCATGTGATTTGTGGAGTGTTGGATGTATTCTCA
EST: gi|22933892|gb|BU551031.1|BU551031
EST:     TAGCTCCATTGTTTCTACAAGGCATTACAGAGCTCCCGAGATTATTCTAG                         GTCTAGGATGGTCATATCCATGTGATTTGTGGAGTGNNNGATGTATTCTCA
genomic: TAGCTCCATTGTTTCTACAAGGCATTACAGAGCTCCCGAGATTATTCTAGgtaactaagt ... aatgtttcagGTCTAGGATGGTCATATCCATGTGATTTGTGGAGTGTTGGATGTATTCTCA
EST: gi|120529842|gb|EH257976.1|EH257976
EST:     TAGCTCCATTGTTTCTACAAGGCATTACAGAGCTCCCGAGATTATTCTAG                         GTCTAGGATGGTCATATCCATGTGATTTGTGGAGTTTTGGAAGTATTCTCA
genomic: TAGCTCCATTGTTTCTACAAGGCATTACAGAGCTCCCGAGATTATTCTAGgtaactaagt ... aatgtttcagGTCTAGGATGGTCATATCCATGTGATTTGTGGAGTGTTGGATGTATTCTCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatactatactgtgtactctttaatgcattctcacctgcatcttaaatgtttcagGTCTAGGATGGTCATATCCATGTGATTTGTGGAGTGTTGGATGTATTCTCATCGAACTATGCTCG
                            ttctcac  putative branch site (score: 2)
                                          ttaaatgttt  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gccttgtctgactagatgacattagagactactgggtctgtagcatatactatactgtgtactctttaatgcattctcacctgcatcttaaatgtttcagGTCTAGGATGGTCATATCCATGTGATTTGTGGAGTGTTGGATGTATTCTCATCGAACTATGCTCG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
-ccttgtc
- - - - - - - - - - - - - -actactg
- - - - - - - - - - - - - - - - - -gtctgta
- - - - - - - - - - - - - - - - - - - - - -catatac
- - - - - - - - - - - - - - - - - - - - - - - - - - - -tgtgtac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttaatgc