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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ataacatgtttggtttgacttgactggaggactgagttgcttccagtgtgagagtgaatctaaacacactacaagtgtaattgaatatctatttgtacagGTGATGGCATATGTGACGGTGGCTGCAGTGGCGGCTGCATTGCAATCTGGGGTGCTTGGAAGGACAGGGCAAGCAGAACTTCAGTGGATGAAGGTGTGCA

Basic information

species Glycine max
transcript GLYMA17G01130.1
intron # 2
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|51341222|gb|CO982539.1|CO982539
EST:     ATGTACTTTTCAGCAAGCCCTTAGCTTGGCTCATTTTCTCTGGTGATCAG                         GTGATGGCATATGTGACGGTGGCTGCAGTGGCGGCTGCATTGCAATCTGGG
genomic: ATGTACTTTTCAGCAAGCCCTTAGCTTGGCTCATTTTCTCTGGTGATCAGgtacctgcat ... atttgtacagGTGATGGCATATGTGACGGTGGCTGCAGTGGCGGCTGCATTGCAATCTGGG
EST: gi|192316047|gb|FK007136.1|FK007136
EST:     ATGTACTTTTCAGCAAGCCCTTAGCTTGGCTCATTTTCTCTGGTGATCAG                         GTGATGGCATATGTGACGGTGGCTGCAGTGGCGGCTGCATTGCAATCTGGG
genomic: ATGTACTTTTCAGCAAGCCCTTAGCTTGGCTCATTTTCTCTGGTGATCAGgtacctgcat ... atttgtacagGTGATGGCATATGTGACGGTGGCTGCAGTGGCGGCTGCATTGCAATCTGGG
EST: gi|213611411|gb|DB976874.1|DB976874
EST:     ATGTACTTTTCAGCAAGCCCTTAGCTTGGCTCATTTTCTCTGGTGATCAG                         GTGATGGCATATGTGACGGTGGCTGCAGTGGCGGCTGCATTGCAATTTGGG
genomic: ATGTACTTTTCAGCAAGCCCTTAGCTTGGCTCATTTTCTCTGGTGATCAGgtacctgcat ... atttgtacagGTGATGGCATATGTGACGGTGGCTGCAGTGGCGGCTGCATTGCAATCTGGG
EST: gi|58024453|gb|CX711194.1|CX711194
EST:     ATGTACTTTTCAGCAAGCCCTTAGCTTGGCTCATTTTCTCTGGTGATCAG                         GTGATGGCATATGTGACGGTGGCTGCAGTGGCGGCTGCATTGCAATCTGGG
genomic: ATGTACTTTTCAGCAAGCCCTTAGCTTGGCTCATTTTCTCTGGTGATCAGgtacctgcat ... atttgtacagGTGATGGCATATGTGACGGTGGCTGCAGTGGCGGCTGCATTGCAATCTGGG
EST: gi|213607704|gb|DB958723.1|DB958723
EST:     ATGTACTTTTCAGCAAGCCCTTAGCTTGGCTCATTTTCTCTGGTGATCAG                         GTGATGGCATATGTGACGGTGGCTGCAGTGGCGGCTGCATTGCAATCTGGG
genomic: ATGTACTTTTCAGCAAGCCCTTAGCTTGGCTCATTTTCTCTGGTGATCAGgtacctgcat ... atttgtacagGTGATGGCATATGTGACGGTGGCTGCAGTGGCGGCTGCATTGCAATCTGGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtgtgagagtgaatctaaacacactacaagtgtaattgaatatctatttgtacagGTGATGGCATATGTGACGGTGGCTGCAGTGGCGGCTGCATTGCAATCTGGGGTGCTTGGAAGGACAGGGCAAGCAGAACTTCAGTGGATGAAGGTGTGCA
            atctaaa  putative branch site (score: 3)
                                          tctattt  putative PPT
                                taattgaatatctatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ataacatgtttggtttgacttgactggaggactgagttgcttccagtgtgagagtgaatctaaacacactacaagtgtaattgaatatctatttgtacagGTGATGGCATATGTGACGGTGGCTGCAGTGGCGGCTGCATTGCAATCTGGGGTGCTTGGAAGGACAGGGCAAGCAGAACTTCAGTGGATGAAGGTGTGCA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - catgttt
- - - - - - - -tgacttg
- - - - - - - - - - - - tggagga
- - - - - - - - - - - - - - - - - - -tgcttcc
- - - - - - - - - - - - - - - - - - - - - - -gtgtgag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aacacac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -caagtgt