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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtcgtttgcaataacaatttaagatcagaaatactttccatattttaactttatataagaaacccattgcttatttcagGCCCATTGAAAAGCTCAGATATACTCCTAATATGAAGAAGCATATTGGCATG

Basic information

species Glycine max
transcript GLYMA17G12530.1
intron # 7
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|209717393|gb|BW659069.1|BW659069
EST:     AGCCAGCATTTTGCAAGCTTAAAACCGGGTGATGTTGTTGAAGTGAAAGG                         GCCCATTGAAAAGCTCAGATATACTCCTAATATGAAGAAGCATATTGGCAT
genomic: AGCCAGCATTTTGCAAGCTTAAAACCGGGTGATGTTGTTGAAGTGAAAGGgtatgtcgtt ... cttatttcagGCCCATTGAAAAGCTCAGATATACTCCTAATATGAAGAAGCATATTGGCAT
EST: gi|11414158|gb|BF426169.1|BF426169
EST:     AGCCAGCATTTTGCAAGCTTAAAACCGGGTGATGTTGTTGAAGTGAAAGG                         GCCCATTGAAAAGCTCAGATATACTCCTAATATGAAGAAGCATATTGGCAT
genomic: AGCCAGCATTTTGCAAGCTTAAAACCGGGTGATGTTGTTGAAGTGAAAGGgtatgtcgtt ... cttatttcagGCCCATTGAAAAGCTCAGATATACTCCTAATATGAAGAAGCATATTGGCAT
EST: gi|254335317|gb|GR846814.1|GR846814
EST:     AGCCAGCATTTTGCAAGCTTAAAACCGGGTGATGTTGTTGAAGTGAAAGG                         GCCCATTGAAAAGCTCAGATATACTCCTAATATGAAGAAGCATATTGGCAT
genomic: AGCCAGCATTTTGCAAGCTTAAAACCGGGTGATGTTGTTGAAGTGAAAGGgtatgtcgtt ... cttatttcagGCCCATTGAAAAGCTCAGATATACTCCTAATATGAAGAAGCATATTGGCAT
EST: gi|192309123|gb|FG999070.1|FG999070
EST:     AGCCAGCATTTTGCAAGCTTAAAACCGGGTGATGTTGTTGAAGTGAAAGG                         GCCCATTGAAAAGCTCAGATATACTCCTAATATGAAGAAGCATATTGGCAT
genomic: AGCCAGCATTTTGCAAGCTTAAAACCGGGTGATGTTGTTGAAGTGAAAGGgtatgtcgtt ... cttatttcagGCCCATTGAAAAGCTCAGATATACTCCTAATATGAAGAAGCATATTGGCAT
EST: gi|254335318|gb|GR846815.1|GR846815
EST:     AGCCAGCATTTTGCAAGCTTAAAACCGGGTGATGTTGTTGAAGTGAAAGG                         GCCCATTGAAAAGCTCAGATATACTCCTAATATGAAGAAGCATATTGGCAT
genomic: AGCCAGCATTTTGCAAGCTTAAAACCGGGTGATGTTGTTGAAGTGAAAGGgtatgtcgtt ... cttatttcagGCCCATTGAAAAGCTCAGATATACTCCTAATATGAAGAAGCATATTGGCAT
EST: gi|193485021|gb|FK449459.1|FK449459
EST:     AGCCAGCATTTTGCAAGCTTAAAACCGGGTGATGTTGTTGAAGTGAAAGG                         GCCCATTGAAAAGCTCAGATATACTCCTAATATGAAGAAGCATATTGGCAT
genomic: AGCCAGCATTTTGCAAGCTTAAAACCGGGTGATGTTGTTGAAGTGAAAGGgtatgtcgtt ... cttatttcagGCCCATTGAAAAGCTCAGATATACTCCTAATATGAAGAAGCATATTGGCAT
EST: gi|6071914|gb|AW101301.1|AW101301
EST:     AGCCAGCATTTTGCAAGCTTAAAACCGGGTGATGTTGTTGAAGTGAAAGG                         GCCCATTGAAAAGCTCAGATATACTCCTAATATGAAGAAGCATATTGGCAT
genomic: AGCCAGCATTTTGCAAGCTTAAAACCGGGTGATGTTGTTGAAGTGAAAGGgtatgtcgtt ... cttatttcagGCCCATTGAAAAGCTCAGATATACTCCTAATATGAAGAAGCATATTGGCAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcagaaatactttccatattttaactttatataagaaacccattgcttatttcagGCCCATTGAAAAGCTCAGATATACTCCTAATATGAAGAAGCATATTGGCATG
                  ttttaac  putative branch site (score: 2)
                                             cttatttc  putative PPT
     aatactttccatattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatgtcgtttgcaataacaatttaagatcagaaatactttccatattttaactttatataagaaacccattgcttatttcagGCCCATTGAAAAGCTCAGATATACTCCTAATATGAAGAAGCATATTGGCATG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC