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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtctctctctctctctctctcactcgcttttgttcttaccaattaatttcagtgtttcctctgcaaaattacctgttcctgtttttaatacattctaatactcaactttccttttcctttcttctcagATGTTGAAGAATTTTTCCAGCAGTGCGATCCTG

Basic information

species Glycine max
transcript GLYMA17G05940.2
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|4301764|gb|AI443237.1|AI443237
EST:     CCGGGACTTCAAGGGCCGTAGAGCTGGCATGATCAAGGCTCTCACCACTG                         ATGTTGAAGAATTTTTCCAGCAGTGCGATCCTG
genomic: CCGGGACTTCAAGGGCCGTAGAGCTGGCATGATCAAGGCTCTCACCACTGgtctctctct ... ttcttctcagATGTTGAAGAATTTTTCCAGCAGTGCGATCCTG
EST: gi|192312491|gb|FK003227.1|FK003227
EST:     CATGATCAAGGCTCTCACCACTG                         ATGTTGAAGAATTTTTCCAGCAGTGCGATCCTG
genomic: CATGATCAAGGCTCTCACCACTGgtctctctct ... ttcttctcagATGTTGAAGAATTTTTCCAGCAGTGCGATCCTG
EST: gi|193538719|gb|FK495981.1|FK495981
EST:     CCGGGACTTCAAGGGCCGTAGAGCTGGCATGATCAAGGCTCTCACCACTG                         ATGTTGAAGAATTTTTCCAGCAGTGCGATCCTG
genomic: CCGGGACTTCAAGGGCCGTAGAGCTGGCATGATCAAGGCTCTCACCACTGgtctctctct ... ttcttctcagATGTTGAAGAATTTTTCCAGCAGTGCGATCCTG
EST: gi|26048084|gb|CA784679.1|CA784679
EST:     CCGGGACTTCAAGGGCCGTAGAGCTGGCATGATCAAGGCTCTCACCACTG                         ATGTTGAAGAATTTTTCCAGCAGTGCGATCCTG
genomic: CCGGGACTTCAAGGGCCGTAGAGCTGGCATGATCAAGGCTCTCACCACTGgtctctctct ... ttcttctcagATGTTGAAGAATTTTTCCAGCAGTGCGATCCTG
EST: gi|26045766|gb|CA783254.1|CA783254
EST:     CCGGGACTTCAAGGGCCGTAGAGCTGGCATGATCAAGGCTCTCACCACTG                         ATGTTGAAGAATTTTTCCAGCAGTGCGATCCTG
genomic: CCGGGACTTCAAGGGCCGTAGAGCTGGCATGATCAAGGCTCTCACCACTGgtctctctct ... ttcttctcagATGTTGAAGAATTTTTCCAGCAGTGCGATCCTG
EST: gi|192312490|gb|FK003226.1|FK003226
EST:     CCGGGACTTCAAGGGCCGTAGAGCTGGCATGATCAAGGCTCTCACCACTG                         ATGTTGAAGAATTTTTCCAGCAGTGCGATCCTG
genomic: CCGGGACTTCAAGGGCCGTAGAGCTGGCATGATCAAGGCTCTCACCACTGgtctctctct ... ttcttctcagATGTTGAAGAATTTTTCCAGCAGTGCGATCCTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgttcctgtttttaatacattctaatactcaactttccttttcctttcttctcagATGTTGAAGAATTTTTCCAGCAGTGCGATCCTG
                   ttctaat  putative branch site (score: 2)
                   ttctaatactcaactt  CT-rich tract
      tgtttttaatacattc  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtctctctctctctctctctcactcgcttttgttcttaccaattaatttcagtgtttcctctgcaaaattacctgttcctgtttttaatacattctaatactcaactttccttttcctttcttctcagATGTTGAAGAATTTTTCCAGCAGTGCGATCCTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA