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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttatatatcacctaatttaaacaatttcaaaattctagatggtagcttttcctgatagcttttgatacttattttgtatctggtattttgtcccttgtagGCAGCTCGTAACAATGTCCTTCTGGCAGTTCCCGCACTTCTGTATGCCATAAACAACTATCTGAAGTTTATCATGCAG

Basic information

species Glycine max
transcript GLYMA20G39020.3
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|19934510|gb|BQ079540.1|BQ079540
EST:     ATCAAAAAGTTGGGGAGAAGCCTCTTCTCTCAATTTCTACATTTGTGCAG                         GCAGCTCGTAACAATGTCCTTCTGGCAGTTCCCGCACTTCTGTATGCCATA
genomic: ATCAAAAAGTTGGGGAGAAGCCTCTTCTCTCAATTTCTACATTTGTGCAGgtactatata ... tcccttgtagGCAGCTCGTAACAATGTCCTTCTGGCAGTTCCCGCACTTCTGTATGCCATA
EST: gi|213598689|gb|DB958189.1|DB958189
EST:     ATCAAAAAGTTGGGGAGAAGCCTCTTCTCTCAATTTCTACATTTGTGCAG                         GCAGCTCGTAACAATGTCCTTCTGGCAGTTCCCGCACTTCTGTATGCCATA
genomic: ATCAAAAAGTTGGGGAGAAGCCTCTTCTCTCAATTTCTACATTTGTGCAGgtactatata ... tcccttgtagGCAGCTCGTAACAATGTCCTTCTGGCAGTTCCCGCACTTCTGTATGCCATA
EST: gi|8827776|gb|BE211506.1|BE211506
EST:     ATCAAAAAGTTGGGGAGAAGCCTCTTCTCTCAATTTCTACATTTGTGCAG                         GCAGCTCGTAACAATGTCCTTCTGGCAGTTCCCGCACTTCTGTATGCCATA
genomic: ATCAAAAAGTTGGGGAGAAGCCTCTTCTCTCAATTTCTACATTTGTGCAGgtactatata ... tcccttgtagGCAGCTCGTAACAATGTCCTTCTGGCAGTTCCCGCACTTCTGTATGCCATA
EST: gi|192326776|gb|FK018903.1|FK018903
EST:     ATCAAAAAGTTGGGGAGAAGCCTCTTCTCTCAATTTCTACATTTGTGCAG                         GCAGCTCGTAACAATGTCCTTCTGGCAGTTCCCGCACTTCTGTATGCCATA
genomic: ATCAAAAAGTTGGGGAGAAGCCTCTTCTCTCAATTTCTACATTTGTGCAGgtactatata ... tcccttgtagGCAGCTCGTAACAATGTCCTTCTGGCAGTTCCCGCACTTCTGTATGCCATA
EST: gi|192298860|gb|FG987605.1|FG987605
EST:     ATCAAAAAGTTGGGGAGAAGCCTCTTCTCTCAATTTCTACATTTGTGCAG                         GCAGCTCGTAACAATGTCCTTCTGGCAGTTCCCGCACTTCTGTATGCCATA
genomic: ATCAAAAAGTTGGGGAGAAGCCTCTTCTCTCAATTTCTACATTTGTGCAGgtactatata ... tcccttgtagGCAGCTCGTAACAATGTCCTTCTGGCAGTTCCCGCACTTCTGTATGCCATA
EST: gi|193691881|gb|FK629004.1|FK629004
EST:     TCAAAAAGTTGGGGAGAAGCCTCTTCTCTCAATTTCTACATTTGTGCAG                         GCAGCTCGTAACAATGTCCTTCTGGCAGTTCCCGCACTTCTGTATGCCATA
genomic: TCAAAAAGTTGGGGAGAAGCCTCTTCTCTCAATTTCTACATTTGTGCAGgtactatata ... tcccttgtagGCAGCTCGTAACAATGTCCTTCTGGCAGTTCCCGCACTTCTGTATGCCATA
EST: gi|21993638|gb|BQ785166.1|BQ785166
EST:     ATCAAAAAGTTGGGGAGAAGCCTCTTCTCTCAATTTCTACATTTGTGCAG                         GCAGCTCGTAACAATGTCCTTCTGGCAGTTCCCGCACTTCTGTATGCCATA
genomic: ATCAAAAAGTTGGGGAGAAGCCTCTTCTCTCAATTTCTACATTTGTGCAGgtactatata ... tcccttgtagGCAGCTCGTAACAATGTCCTTCTGGCAGTTCCCGCACTTCTGTATGCCATA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttttcctgatagcttttgatacttattttgtatctggtattttgtcccttgtagGCAGCTCGTAACAATGTCCTTCTGGCAGTTCCCGCACTTCTGTATGCCATAAACAACTATCTGAAGTTTATCATGCAG
                                        ttttgtccctt  CT-rich tract
              ttttgatacttatttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttatatatcacctaatttaaacaatttcaaaattctagatggtagcttttcctgatagcttttgatacttattttgtatctggtattttgtcccttgtagGCAGCTCGTAACAATGTCCTTCTGGCAGTTCCCGCACTTCTGTATGCCATAAACAACTATCTGAAGTTTATCATGCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG