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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagtggagtttaatgatggtaaattgtcacttggagtaaaattttgttattgttttaacaatattttaatggatttgtacagCTTCTACACAGAAAGTACAGTGGAAACTTCATTGTAGATCTATTGGGCAAATGGAAGGAGTCTGAATATGGAGGTGGTCAGTCTGTTCCTGTTGGTGGTA

Basic information

species Glycine max
transcript GLYMA06G32680.1
intron # 4
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|21889820|gb|BQ743033.1|BQ743033
EST:     CATTATTCTTCAGTCTGCCCTTGTTTCCAATCTCTACTTCATNTTCTCAG                         CTTCTACACAGAAAGTACAGTGGAAACTTCATTGTAGATCTATTGGGCAA
genomic: CATTATTCTTCAGTCTGCCCTTGTTTCCAATCTCTACTTCAT-TTCTCAGgtagtggagt ... atttgtacagCTTCTACACAGAAAGTACAGTGGAAACTTCATTGTAGATCTATTGGGCAA
EST: gi|37997748|gb|CF809337.1|CF809337
EST:     CCATTATTCTTCAGTCTGCCCTTGTTTCCAATCTCTACTTCATTTCTCAG                         CTTCTACACAGAAAGTACAGTGGAAACTTCATTGTAGATCTATTGGGCAAA
genomic: CCATTATTCTTCAGTCTGCCCTTGTTTCCAATCTCTACTTCATTTCTCAGgtagtggagt ... atttgtacagCTTCTACACAGAAAGTACAGTGGAAACTTCATTGTAGATCTATTGGGCAAA
EST: gi|16345250|gb|BI970845.1|BI970845
EST:     AGTCTGCCCTTGTTTCCAATCTCTACTTCATTTCTCAG                         CTTCTACACAGAAAGTACAGTGGAAACTTCATTGTAGATCTATTGGGCAAA
genomic: AGTCTGCCCTTGTTTCCAATCTCTACTTCATTTCTCAGgtagtggagt ... atttgtacagCTTCTACACAGAAAGTACAGTGGAAACTTCATTGTAGATCTATTGGGCAAA
EST: gi|254327677|gb|GR834642.1|GR834642
EST:     CCATTATTCTTCAGTCTGCCCTTGTTTCCAATCTCTACTTCATTTCTCAG                         CTTCTACACAGAAAGTACAGTGGAAACTTCATTGTAGATCTATTGGGCAAA
genomic: CCATTATTCTTCAGTCTGCCCTTGTTTCCAATCTCTACTTCATTTCTCAGgtagtggagt ... atttgtacagCTTCTACACAGAAAGTACAGTGGAAACTTCATTGTAGATCTATTGGGCAAA
EST: gi|192309135|gb|FG999404.1|FG999404
EST:     ATCTCTACTTCATTTCTCAG                         CTTCTACACAGAAAGTACAGTGGAAACTTCATTGTAGATCTATTGGGCAAA
genomic: ATCTCTACTTCATTTCTCAGgtagtggagt ... atttgtacagCTTCTACACAGAAAGTACAGTGGAAACTTCATTGTAGATCTATTGGGCAAA
EST: gi|37995033|gb|CF806622.1|CF806622
EST:     CCATTATTCTTCAGTCTGCCCTTGTTTCCAATCTCTACTTCATTTCTCAG                         CTTCTACACAGAAAGTACAGTGGAAACTTCATTGTAGATCTATTGGGCAAA
genomic: CCATTATTCTTCAGTCTGCCCTTGTTTCCAATCTCTACTTCATTTCTCAGgtagtggagt ... atttgtacagCTTCTACACAGAAAGTACAGTGGAAACTTCATTGTAGATCTATTGGGCAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cacttggagtaaaattttgttattgttttaacaatattttaatggatttgtacagCTTCTACACAGAAAGTACAGTGGAAACTTCATTGTAGATCTATTGGGCAAATGGAAGGAGTCTGAATATGGAGGTGGTCAGTCTGTTCCTGTTGGTGGTA
         taaaattttgttattg  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtagtggagtttaatgatggtaaattgtcacttggagtaaaattttgttattgttttaacaatattttaatggatttgtacagCTTCTACACAGAAAGTACAGTGGAAACTTCATTGTAGATCTATTGGGCAAATGGAAGGAGTCTGAATATGGAGGTGGTCAGTCTGTTCCTGTTGGTGGTA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGTGG