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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atttatgaattttgatgtaacataacttgatggaatttttagaaatttgcagactgacatcatttcaatgctcattttcctttcttttgtggaggtaaagCTGTTTCAATGCCAACCCTGTCAATTCCATAGATGCACAGAACTATATCTTCCTCATCAAACATATTATACTCGAACTACATCAATTAAAGTATCAATGG

Basic information

species Glycine max
transcript GLYMA0041S00300.2
intron # 1
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|120529649|gb|EH257783.1|EH257783
EST:     ATATGGCGATTCTTCCTTCTCTTGCAGTTCCTTCAACTCCCATTTCTCGGGTAAAG                    
genomic: ATATGGCGATTCTTCCTTCTCTTGCAGTTCCTTCAACTCCCATTTCTC--G----Ggtatgttttt ... ggagg
EST: gi|193556769|gb|FK516066.1|FK516066
EST:     ATATGGCGATTCTTCCTTCTCTTGCAGTTCCTTCAACTCCCATTTCTCGG                         CTGTTTCAATGCCAACCCTGTCAATTCCATAGATGCACAGAACTATATCTT
genomic: ATATGGCGATTCTTCCTTCTCTTGCAGTTCCTTCAACTCCCATTTCTCGGgtatgttttt ... ggaggtaaagCTGTTTCAATGCCAACCCTGTCAATTCCATAGATGCACAGAACTATATCTT
EST: gi|120529695|gb|EH257829.1|EH257829
EST:     ATATGGCGATTCTTCCTTCTCTTGCAGTTCCTTCAACTCCCATTTCTCGGGTAAAG                    
genomic: ATATGGCGATTCTTCCTTCTCTTGCAGTTCCTTCAACTCCCATTTCTC--G----Ggtatgttttt ... ggagg
EST: gi|7283895|gb|AW596497.1|AW596497
EST:     ATATGGCGATTCTTCCTTCTCTTGCAGTTCCTTCAACTCCCATTTCTCGGGTAAAG                    
genomic: ATATGGCGATTCTTCCTTCTCTTGCAGTTCCTTCAACTCCCATTTCTC--G----Ggtatgttttt ... ggagg
EST: gi|192308859|gb|FK002083.1|FK002083
EST:     ATATGGCGATTCTTCCTTCTCTTGCAGTTCCTTCAACTCCCATTTCTCGGGTAAAG                    
genomic: ATATGGCGATTCTTCCTTCTCTTGCAGTTCCTTCAACTCCCATTTCTC--G----Ggtatgttttt ... ggagg
EST: gi|192304316|gb|FG993572.1|FG993572
EST:     ATATGGCGATTCTTCCTTCTCTTGCAGTTCCTTCAACTCCCATTTCTCGG                         CTGTTTCAATGCCAACCCTGTCAATTCCATAGATGCACAGAACTATATCTT
genomic: ATATGGCGATTCTTCCTTCTCTTGCAGTTCCTTCAACTCCCATTTCTCGGgtatgttttt ... ggaggtaaagCTGTTTCAATGCCAACCCTGTCAATTCCATAGATGCACAGAACTATATCTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttgcagactgacatcatttcaatgctcattttcctttcttttgtggaggtaaagCTGTTTCAATGCCAACCCTGTCAATTCCATAGATGCACAGAACTATATCTTCCTCATCAAACATATTATACTCGAACTACATCAATTAAAGTATCAATGG
      gactgac  putative branch site (score: 2)
                         ctcattttcctttctt  putative PPT
                atttcaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
atttatgaattttgatgtaacataacttgatggaatttttagaaatttgcagactgacatcatttcaatgctcattttcctttcttttgtggaggtaaagCTGTTTCAATGCCAACCCTGTCAATTCCATAGATGCACAGAACTATATCTTCCTCATCAAACATATTATACTCGAACTACATCAATTAAAGTATCAATGG

- - - - - - tgatgta
- - - - - - - - - - - - -cttgatg
- - - - - - - - - - - - - - - - - - - - - - - -tgcagac
- - - - - - - - - - - - - - - - - - - - - - - - - - - tgacatc