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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagtggagtttaattatggtaaattgtcacttggagtaaaattttgctactgttttatcaagattttactggatttgtacagCTTCTACACAGAAAGTACAGTGGAAACTTCTTTGTAGATCTATTGGGCAAATGGAAGGAGTCTGAATATGGAGGTGGTCAGTCTGTTCCTGTTGGTGGTA

Basic information

species Glycine max
transcript GLYMA12G17950.1
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|19052928|gb|BM731595.1|BM731595
EST:     CCATTATTCTTCAGTCTGCCCTTGTTTCCAATCTCTACTTCATTTCTCAG                         CTTCTACACAGAAAGTACAGTGGAAACTTCATTGTAGATCTATTGGGCAAA
genomic: CCATTATTCTTCAGTCTGCCCTTGTTTCCAATCTCTACTTCATTTCTCAGgtagtggagt ... atttgtacagCTTCTACACAGAAAGTACAGTGGAAACTTCTTTGTAGATCTATTGGGCAAA
EST: gi|18041345|gb|BM309639.1|BM309639
EST:     CCATTATTCTTCAGTCTGCCCTTGTTTCCAATCTCTACTTCATTTCTCAG                         CTTCTACACAGAAAGTACAGTGGAAACTTCTTTGTAGATCTATTGGGCAAA
genomic: CCATTATTCTTCAGTCTGCCCTTGTTTCCAATCTCTACTTCATTTCTCAGgtagtggagt ... atttgtacagCTTCTACACAGAAAGTACAGTGGAAACTTCTTTGTAGATCTATTGGGCAAA
EST: gi|20812894|gb|BQ297372.1|BQ297372
EST:     GTTTCCAATCTCTACTTCATTTCTCAG                         CTTCTACACAGAAAGTACAGTGGAAACTTCTTTGTAGATCTATTGGGCAAA
genomic: GTTTCCAATCTCTACTTCATTTCTCAGgtagtggagt ... atttgtacagCTTCTACACAGAAAGTACAGTGGAAACTTCTTTGTAGATCTATTGGGCAAA
EST: gi|17519265|gb|BM188307.1|BM188307
EST:     CCATTATTCTTCAGTCTGCCCTTGTTTCCAATCTCTACTTCATTTCTCAG                         CTTCTACACAGAAAGTACAGTGGAAACTTCATTGTAGATCTATTGGGCAAA
genomic: CCATTATTCTTCAGTCTGCCCTTGTTTCCAATCTCTACTTCATTTCTCAGgtagtggagt ... atttgtacagCTTCTACACAGAAAGTACAGTGGAAACTTCTTTGTAGATCTATTGGGCAAA
EST: gi|193585383|gb|FK539062.1|FK539062
EST:     CCATTATTCTTCAGTCTGCCCTTGTTTCCAATCTCTACTTCATTTCTCAG                         CTTCTACACAGAAAGTACAGTGGAAACTTCATTGTAGATCTATTGGGCAAA
genomic: CCATTATTCTTCAGTCTGCCCTTGTTTCCAATCTCTACTTCATTTCTCAGgtagtggagt ... atttgtacagCTTCTACACAGAAAGTACAGTGGAAACTTCTTTGTAGATCTATTGGGCAAA
EST: gi|298169258|gb|HO020618.1|HO020618
EST:     CCATTATTCTTCAGTCTGCCCTTGTTTCCAATCTCTACTTCATTTCTCAG                         CTTCTACACAGAAAGTACAGTGGAAACTTCTTTGTAGATCTATTGGGCAAA
genomic: CCATTATTCTTCAGTCTGCCCTTGTTTCCAATCTCTACTTCATTTCTCAGgtagtggagt ... atttgtacagCTTCTACACAGAAAGTACAGTGGAAACTTCTTTGTAGATCTATTGGGCAAA
EST: gi|208149173|gb|GD949403.1|GD949403
EST:     CCATTATTCTTCAGTCTGCCCTTGTTTCCAATCTCTACTTCATTTCTCAG                         CTTCTACACAGAAAGTACAGTGGAAACTTCATTGTAGGTCTATTGGGCAAA
genomic: CCATTATTCTTCAGTCTGCCCTTGTTTCCAATCTCTACTTCATTTCTCAGgtagtggagt ... atttgtacagCTTCTACACAGAAAGTACAGTGGAAACTTCTTTGTAGATCTATTGGGCAAA
EST: gi|193641768|gb|FK590634.1|FK590634
EST:     CCATTATTCTTCAGTCTGCCCTTGTTTCCAATCTCTACTTCATTTCTCAG                         CTTCTACACAGAAAGTACAGTGGAAACTTCATTGTAGATCTATTAGGGCAA
genomic: CCATTATTCTTCAGTCTGCCCTTGTTTCCAATCTCTACTTCATTTCTCAGgtagtggagt ... atttgtacagCTTCTACACAGAAAGTACAGTGGAAACTTCTTTGTAGATCTATT-GGGCAA
EST: gi|208166006|gb|GD959962.1|GD959962
EST:     CCATTATTCTTCAGTCTGCCCTTGTTTCCAATCTCTACTTCATTTCTCAG                         CTTCTACACAGAAAGTACAGTGGAAACTTCATTGTAGATCTATTGGGCAAA
genomic: CCATTATTCTTCAGTCTGCCCTTGTTTCCAATCTCTACTTCATTTCTCAGgtagtggagt ... atttgtacagCTTCTACACAGAAAGTACAGTGGAAACTTCTTTGTAGATCTATTGGGCAAA
EST: gi|5126396|gb|AI748132.1|AI748132
EST:     CCATTATTCTTCAGTCTGCCCTTGTTTCCAATCTCTACTTCATTTCTCAG                         CTTCTACACAGAAAGTACAGTGGAAACTTCTTTGTAGATCTATTGGGCAAA
genomic: CCATTATTCTTCAGTCTGCCCTTGTTTCCAATCTCTACTTCATTTCTCAGgtagtggagt ... atttgtacagCTTCTACACAGAAAGTACAGTGGAAACTTCTTTGTAGATCTATTGGGCAAA
EST: gi|208076658|gb|GD875587.1|GD875587
EST:     CCATTATTCTTCAGTCTGCCCTTGTTTCCAATCTCTACTTCATTTCTCAG                         CTTCTACACAGAAAGTACAGTGGAAACTTCTTTGTAGATCTATTGGGCAAA
genomic: CCATTATTCTTCAGTCTGCCCTTGTTTCCAATCTCTACTTCATTTCTCAGgtagtggagt ... atttgtacagCTTCTACACAGAAAGTACAGTGGAAACTTCTTTGTAGATCTATTGGGCAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cacttggagtaaaattttgctactgttttatcaagattttactggatttgtacagCTTCTACACAGAAAGTACAGTGGAAACTTCTTTGTAGATCTATTGGGCAAATGGAAGGAGTCTGAATATGGAGGTGGTCAGTCTGTTCCTGTTGGTGGTA
                         ttttatcaagatttta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtagtggagtttaattatggtaaattgtcacttggagtaaaattttgctactgttttatcaagattttactggatttgtacagCTTCTACACAGAAAGTACAGTGGAAACTTCTTTGTAGATCTATTGGGCAAATGGAAGGAGTCTGAATATGGAGGTGGTCAGTCTGTTCCTGTTGGTGGTA

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