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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CACAATTTCTCTCTCCTCTCTCTCTCTACAAATCCTTCTTTCTTTCTTCTCTTCGCTGCTCACTGTAGCCATGGCTTTCAGAGTAGGAGGAGCGGGAGGGgtaagcttttcttttgccttttcgctttcctgctgcatctttttttcttcttccatattttccccccttttccctttttctttttgcgctgtctcgttcg...

Basic information

species Glycine max
transcript GLYMA20G35190.1
intron # 1
splice site 5'
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|209714633|gb|BW654045.1|BW654045
EST:     TCGCTGCTCACTGTAGCCATGGCTTTCAGAGTAGGAGGAGCGGGAGGG                         GGAAATGCCTCTTCTGGCATGGGTGTTGCTGAGCATAGTGTAAACACCTTC
genomic: TCGCTGCTCACTGTAGCCATGGCTTTCAGAGTAGGAGGAGCGGGAGGGgtaagctttt ... ttcaatgtagGGAAATGCCTCTTCTGGCATGGGTGTTGCTGAGCATAGTGTAAACACCTTC
EST: gi|21887631|gb|BQ740844.1|BQ740844
EST:     GCTGCTCACTGTAGCCATGGCTTTCAGAGTAGGAGGAGCGGGAGGG                         GGAAATGCCTCTTCTGGCATGGGTGTTGCTGAGCATAGTGTAAACACCTTC
genomic: GCTGCTCACTGTAGCCATGGCTTTCAGAGTAGGAGGAGCGGGAGGGgtaagctttt ... ttcaatgtagGGAAATGCCTCTTCTGGCATGGGTGTTGCTGAGCATAGTGTAAACACCTTC
EST: gi|254336711|gb|GR842890.1|GR842890
EST:     GCTGCTCACTGTAGCCATGGCTTTCAGAGTAGGAGGAGCGGGAGGG                         GGAAATGCCTCTTCTGGCATGGGTGTTGCTGAGCATAGTGTAAACACCTTC
genomic: GCTGCTCACTGTAGCCATGGCTTTCAGAGTAGGAGGAGCGGGAGGGgtaagctttt ... ttcaatgtagGGAAATGCCTCTTCTGGCATGGGTGTTGCTGAGCATAGTGTAAACACCTTC
EST: gi|15814871|gb|BI787146.1|BI787146
EST:     CTCACTGTAGCCATGGCTTTCAGAGTAGGAGGAGCGGGAGGG                         GGAAATGCCTCTTCTGGCATGGGTGTTGCTGAGCATAGTGTAAACACCTTC
genomic: CTCACTGTAGCCATGGCTTTCAGAGTAGGAGGAGCGGGAGGGgtaagctttt ... ttcaatgtagGGAAATGCCTCTTCTGGCATGGGTGTTGCTGAGCATAGTGTAAACACCTTC
EST: gi|7925293|gb|AW831319.1|AW831319
EST:     GCTGCTCACTGTAGCCATGGCTTTCAGAGTAGGAGGAGCGGGAGGG                         GGAAATGCCTCTTCTGGCATGGGTGTTGCTGAGCATAGTGTAAACACCTTC
genomic: GCTGCTCACTGTAGCCATGGCTTTCAGAGTAGGAGGAGCGGGAGGGgtaagctttt ... ttcaatgtagGGAAATGCCTCTTCTGGCATGGGTGTTGCTGAGCATAGTGTAAACACCTTC
EST: gi|10846286|gb|BF069209.1|BF069209
EST:     TGTAGCCATGGCTTTCAGAGTAGGAGGAGCGGGAGGG                         GGAAATGCCTCTTCTGGCATGGGTGTTGCTGAGCATAGTGTAAACACCTTC
genomic: TGTAGCCATGGCTTTCAGAGTAGGAGGAGCGGGAGGGgtaagctttt ... ttcaatgtagGGAAATGCCTCTTCTGGCATGGGTGTTGCTGAGCATAGTGTAAACACCTTC
EST: gi|14258838|gb|BG881746.1|BG881746
EST:     GCTGCTCACTGTAGCCATGGCTTTCAGAGTAGGAGGAGCGGGAGGG                         GGAAATGCCTCTTCTGGCATGGGTGTTGCTGAGCATAGTGTAAACACCTTC
genomic: GCTGCTCACTGTAGCCATGGCTTTCAGAGTAGGAGGAGCGGGAGGGgtaagctttt ... ttcaatgtagGGAAATGCCTCTTCTGGCATGGGTGTTGCTGAGCATAGTGTAAACACCTTC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CACAATTTCTCTCTCCTCTCTCTCTCTACAAATCCTTCTTTCTTTCTTCTCTTCGCTGCTCACTGTAGCCATGGCTTTCAGAGTAGGAGGAGCGGGAGGGgtaagcttttcttttgccttttcgctttcctgctgcatctttttttcttcttccatattttccccccttttccctttttctttttgcgctgtctcgttcg

- - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttccccc