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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttttaatgaacttgttcttacaaataaataactgctacctctgtattgttgcttttgcaaagtgacattggagctgctatgtataataatatctacataaatataaatttttgatagatgtaatcacatgcttgaaaatagAAAAATGGGGATGAAGGAGGCAAGGATATTATGAAAAAGCATCGCCGGCAAGTTTTGTTCAGTGGAATTGTTACAGCCGTAG

Basic information

species Glycine max
transcript GLYMA13G41580.1
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|192323380|gb|FK017081.1|FK017081
EST:     TTATCCCAGAGCCAACACTTACACCCACTTCTGATGTGAAGGGCAGAAAG                         AAAAATGGGGATGAAGGAGGCAAGGATATTATGAAAAAGCATCGCCGGCAA
genomic: TTATCCCAGAGCCAACACTTACACCCACTTCTGATGTGAAGGGCAGAAAGgttttaatga ... ttgaaaatagAAAAATGGGGATGAAGGAGGCAAGGATATTATGAAAAAGCATCGCCGGCAA
EST: gi|298174471|gb|HO014616.1|HO014616
EST:     TTATCCCAGAGCCAACACTTACACCCACTTCTGATGTGAAGGGCAGAAAG                         AAAAATGGGGATGAAGGAGGCAAGGATATTATGAAAAAGCATCGCCGGCGA
genomic: TTATCCCAGAGCCAACACTTACACCCACTTCTGATGTGAAGGGCAGAAAGgttttaatga ... ttgaaaatagAAAAATGGGGATGAAGGAGGCAAGGATATTATGAAAAAGCATCGCCGGCAA
EST: gi|192300198|gb|FG989320.1|FG989320
EST:     TTATCCCAGAGCCAACACTTACACCCACTTCTGATGTGAAGGGCAGAAAG                         AAAAATGGGGATGAAGGAGGCAAGGATATTATGAAAAAGCATCGCCGGCAA
genomic: TTATCCCAGAGCCAACACTTACACCCACTTCTGATGTGAAGGGCAGAAAGgttttaatga ... ttgaaaatagAAAAATGGGGATGAAGGAGGCAAGGATATTATGAAAAAGCATCGCCGGCAA
EST: gi|213617692|gb|DB967222.1|DB967222
EST:     TTATCCCAGAGCCAACACTTACACCCACTTCTGATGTGAAGGGCAGAAAG                         AAAAATGGGGATGAAGGAGGCAAGGATATTATGAAAAAGCATCGCCGGCAA
genomic: TTATCCCAGAGCCAACACTTACACCCACTTCTGATGTGAAGGGCAGAAAGgttttaatga ... ttgaaaatagAAAAATGGGGATGAAGGAGGCAAGGATATTATGAAAAAGCATCGCCGGCAA
EST: gi|298198295|gb|HO039834.1|HO039834
EST:     TTATCCCAGAGCCAACACTTACACCCACTTCTGATGTGAGGGGCAGAAAG                         AAAAATGGGGATGAAGGAGGCAAGGATATTATGAAAAAGCATCGCCGGCAA
genomic: TTATCCCAGAGCCAACACTTACACCCACTTCTGATGTGAAGGGCAGAAAGgttttaatga ... ttgaaaatagAAAAATGGGGATGAAGGAGGCAAGGATATTATGAAAAAGCATCGCCGGCAA
EST: gi|298167335|gb|HO010774.1|HO010774
EST:     TTATCCCAGAGCCAACACTTACACCCACTTCTGATGTGAAGGGCAGAAAG                         AAAAATGGGGATGAAGGAGGCAAGGATATTATGAAAAAGCATCGCCGGCAA
genomic: TTATCCCAGAGCCAACACTTACACCCACTTCTGATGTGAAGGGCAGAAAGgttttaatga ... ttgaaaatagAAAAATGGGGATGAAGGAGGCAAGGATATTATGAAAAAGCATCGCCGGCAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taatatctacataaatataaatttttgatagatgtaatcacatgcttgaaaatagAAAAATGGGGATGAAGGAGGCAAGGATATTATGAAAAAGCATCGCCGGCAAGTTTTGTTCAGTGGAATTGTTACAGCCGTAG
                      ttttgat  putative branch site (score: 4)
       tacataaatataaatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttttaatgaacttgttcttacaaataaataactgctacctctgtattgttgcttttgcaaagtgacattggagctgctatgtataataatatctacataaatataaatttttgatagatgtaatcacatgcttgaaaatagAAAAATGGGGATGAAGGAGGCAAGGATATTATGAAAAAGCATCGCCGGCAAGTTTTGTTCAGTGGAATTGTTACAGCCGTAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA