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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttgaatgaaaatgaaatttccttcattgctatgtggatgggtacttcatgcttcccataattgaggatgtttctaatttgtattttttttttctttgcagCTACTGAATGGGTGAAGGGAAAGCAAATGGAGGAAGTTTTGACCATTAAAAACAC

Basic information

species Glycine max
transcript GLYMA06G19310.1
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|6566871|gb|AW234503.1|AW234503
EST:     TCGCTTCAAAACCTTCGGTTGTGGATCCGCCATTGCTTCTTCCTCCGTCG                         CTACTGAATGGGTGAAGGGAAAGCAAATGGAGGAAGTTTTGACCATTAAAA
genomic: TCGCTTCAAAACCTTCGGTTGTGGATCCGCCATTGCTTCTTCCTCCGTCGgtaatgatat ... ttctttgcagCTACTGAATGGGTGAAGGGAAAGCAAATGGAGGAAGTTTTGACCATTAAAA
EST: gi|193363052|gb|FK328816.1|FK328816
EST:     TCGCTTCAAAACCTTCGGTTGTGGATCCGCCATTGCTTCTTCCTCCGTCG                         CTACTGAATGGGTGAAGGGAAAGCAAATGGAGGAAGTTTTGACCATCAAAA
genomic: TCGCTTCAAAACCTTCGGTTGTGGATCCGCCATTGCTTCTTCCTCCGTCGgtaatgatat ... ttctttgcagCTACTGAATGGGTGAAGGGAAAGCAAATGGAGGAAGTTTTGACCATTAAAA
EST: gi|16105635|gb|BI893375.1|BI893375
EST:     TCGCTTCAAAACCTTCGGTTGTGGATCCGCCATTGCTTCTTCCTCCGTCG                         CTACTGAATGGGTGAAGGGAAAGCAAATGGAGGAAGTTTTGACCATTAAAA
genomic: TCGCTTCAAAACCTTCGGTTGTGGATCCGCCATTGCTTCTTCCTCCGTCGgtaatgatat ... ttctttgcagCTACTGAATGGGTGAAGGGAAAGCAAATGGAGGAAGTTTTGACCATTAAAA
EST: gi|298167282|gb|HO010721.1|HO010721
EST:     TCGCTTCAAAACCTTCGGTTGTGGATCCGCCATTGCTTCTTCCTCCGTCG                         CTACTGAATGGGTGAAGGGAAAGCAAATGGAGGAAGTTTTGACCATTAAAA
genomic: TCGCTTCAAAACCTTCGGTTGTGGATCCGCCATTGCTTCTTCCTCCGTCGgtaatgatat ... ttctttgcagCTACTGAATGGGTGAAGGGAAAGCAAATGGAGGAAGTTTTGACCATTAAAA
EST: gi|6566522|gb|AW234165.1|AW234165
EST:     TCGCTTCAAAACCTTCGGTTGTGGATCCGCCATTGCTTCTTCCTCCGTCG                         CTACTGAATGGGTGAAGGGAAAGCAAATGGAGGAAGTTTTGACCATTAAAA
genomic: TCGCTTCAAAACCTTCGGTTGTGGATCCGCCATTGCTTCTTCCTCCGTCGgtaatgatat ... ttctttgcagCTACTGAATGGGTGAAGGGAAAGCAAATGGAGGAAGTTTTGACCATTAAAA
EST: gi|31460265|gb|CD402233.1|CD402233
EST:     TCGCTTCAAAACCTTCGGTTGTGGATCCGCCATTGCTTCTTCCTCCGTCG                         CTACTGAATGGGTGAAGGGAAAGCAAATGGAGGAAGTTTTGACCATTAAAA
genomic: TCGCTTCAAAACCTTCGGTTGTGGATCCGCCATTGCTTCTTCCTCCGTCGgtaatgatat ... ttctttgcagCTACTGAATGGGTGAAGGGAAAGCAAATGGAGGAAGTTTTGACCATTAAAA
EST: gi|298174719|gb|HO014750.1|HO014750
EST:     TCGCTTCAAAACCTTCGGTTGTGGATCCGCCATTGCTTCTTCCTCCGTCG                         CTACTGAATGGGTGAAGGGAAAGCAAATGGAGGAAGTTTTGACCATTAAAA
genomic: TCGCTTCAAAACCTTCGGTTGTGGATCCGCCATTGCTTCTTCCTCCGTCGgtaatgatat ... ttctttgcagCTACTGAATGGGTGAAGGGAAAGCAAATGGAGGAAGTTTTGACCATTAAAA
EST: gi|254313658|gb|GR831287.1|GR831287
EST:     TCGCTTCAAAACCTTCGGTTGTGGATCCGCCATTGCTTCTTCCTCCGTCG                         CTACTGAATGGGTGAAGGGAAAGCAAATGGAGGAAGTTTTGACCATTAAAA
genomic: TCGCTTCAAAACCTTCGGTTGTGGATCCGCCATTGCTTCTTCCTCCGTCGgtaatgatat ... ttctttgcagCTACTGAATGGGTGAAGGGAAAGCAAATGGAGGAAGTTTTGACCATTAAAA
EST: gi|16343105|gb|BI968700.1|BI968700
EST:     TCGCTTCAAAACCTTCGGTTGTGGATCCGCCATTGCTTCTTCCTCCGTCG                         CTACTGAATGGGTGAAGGGAAAGCAAATGGAGGAAGTTTTGACCATTAAAA
genomic: TCGCTTCAAAACCTTCGGTTGTGGATCCGCCATTGCTTCTTCCTCCGTCGgtaatgatat ... ttctttgcagCTACTGAATGGGTGAAGGGAAAGCAAATGGAGGAAGTTTTGACCATTAAAA
EST: gi|20449069|gb|BQ253193.1|BQ253193
EST:     TCGCTTCAAAACCTTCGGTTGTGGATCCGCCATTGCTTCTTCCTCCGTCG                         CTACTGAATGGGTGAAGGGAAAGCAAATGGAGGAAGTTTTGACCATTAAAA
genomic: TCGCTTCAAAACCTTCGGTTGTGGATCCGCCATTGCTTCTTCCTCCGTCGgtaatgatat ... ttctttgcagCTACTGAATGGGTGAAGGGAAAGCAAATGGAGGAAGTTTTGACCATTAAAA
EST: gi|31459833|gb|CD401861.1|CD401861
EST:     TCGCTTCAAAACCTTCGGTTGTGGATCCGCCATTGCTTCTTCCTCCGTCG                         CTACTGAATGGGTGAAGGGAAAGCAAATGGAGGAAGTTTTGACCATTAAAG
genomic: TCGCTTCAAAACCTTCGGTTGTGGATCCGCCATTGCTTCTTCCTCCGTCGgtaatgatat ... ttctttgcagCTACTGAATGGGTGAAGGGAAAGCAAATGGAGGAAGTTTTGACCATTAAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcatgcttcccataattgaggatgtttctaatttgtattttttttttctttgcagCTACTGAATGGGTGAAGGGAAAGCAAATGGAGGAAGTTTTGACCATTAAAAACAC
                         ttctaat  putative branch site (score: 2)
                        tttctaatttgtattt  CT-rich tract
                     atgtttctaatttgta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttgaatgaaaatgaaatttccttcattgctatgtggatgggtacttcatgcttcccataattgaggatgtttctaatttgtattttttttttctttgcagCTACTGAATGGGTGAAGGGAAAGCAAATGGAGGAAGTTTTGACCATTAAAAACAC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
-tgaatga
- - - - aaatgaaa
- - - - - - - - - tccttca
- - - - - - - - - - - - - tgctatg
- - - - - - - - - - - - - - - - - ggatggg
- - - - - - - - - - - - - - - - - - - - - -cttcatg
- - - - - - - - - - - - - - - - - - - - - - - - - cttccca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gaggatg