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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...agtatttgttgcattgtaatatttctctttgatggcactgctctatggtggcatatttgctatagactgtatattgagataacttccatttctttcccagAAACGGAGCACAGAAGCTACTTGGTATTTTGATAGCTGTTGGTGAGGCAGTTGCCTATGTTCTTTCGGGGATGTATGGTAGTGTGGGGCAACTCGGAGTA

Basic information

species Glycine max
transcript GLYMA12G35990.1
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|209698282|gb|BW678040.1|BW678040
EST:     TCAAAGATCATTGAAGTGGACAACAATGTACGAGAGGATCGAGCCCTGTT                         AAACGGAGCACAGAAGCTACTTGGTATTTTGATAGCTGTTGGTGAGGCAGT
genomic: TCAAAGATCATTGAAGTGGACAACAATGTACGAGAGGATCGAGCCCTGTTgtatgtgcct ... tctttcccagAAACGGAGCACAGAAGCTACTTGGTATTTTGATAGCTGTTGGTGAGGCAGT
EST: gi|254316195|gb|GR827732.1|GR827732
EST:     TCAAAGATCATTGAAGTGGACAACAATGTACGAGAGGATCGAGCCCTGTT                         AAACGGAGCACAGAAGCTACTTGGTATTTTGATAGCTGTTGGTGAGGCAGT
genomic: TCAAAGATCATTGAAGTGGACAACAATGTACGAGAGGATCGAGCCCTGTTgtatgtgcct ... tctttcccagAAACGGAGCACAGAAGCTACTTGGTATTTTGATAGCTGTTGGTGAGGCAGT
EST: gi|208171512|gb|GD971909.1|GD971909
EST:     TCAAAGATCATTGAAGTGGACAACAATGTACGAGAGGATCGAGCCCTGTT                         AAACGGAGCACA
genomic: TCAAAGATCATTGAAGTGGACAACAATGTACGAGAGGATCGAGCCCTGTTgtatgtgcct ... tctttcccagAAACGGAGCACA
EST: gi|213614652|gb|DB972864.1|DB972864
EST:     TCAAAGATCATTGAAGTGGACAACAATGTACGAGAGGATCGAGCCCTGTT                         AAACGGAGCACAGAAGCTACTTGGTATTTTGATAGCTGTTGGTGAAGCAGT
genomic: TCAAAGATCATTGAAGTGGACAACAATGTACGAGAGGATCGAGCCCTGTTgtatgtgcct ... tctttcccagAAACGGAGCACAGAAGCTACTTGGTATTTTGATAGCTGTTGGTGAGGCAGT
EST: gi|207702735|gb|GD684737.1|GD684737
EST:     TCAAAGATCATTGAAGTGGACAACAATGTACGAGAGGATCGAGCCCTGTT                         AAACGGAGCACA
genomic: TCAAAGATCATTGAAGTGGACAACAATGTACGAGAGGATCGAGCCCTGTTgtatgtgcct ... tctttcccagAAACGGAGCACA
EST: gi|254347543|gb|GR853792.1|GR853792
EST:     TCAAAGATCATTGAAGTGGACAACAATGTACGAGAGGATCGAGCCCTGTT                         AAACGGAGCACAGAAGCTACTTGGTATTTTGATAGCTGTTGGTGAGGCAGT
genomic: TCAAAGATCATTGAAGTGGACAACAATGTACGAGAGGATCGAGCCCTGTTgtatgtgcct ... tctttcccagAAACGGAGCACAGAAGCTACTTGGTATTTTGATAGCTGTTGGTGAGGCAGT
EST: gi|254329727|gb|GR839280.1|GR839280
EST:     TCAAAGATCATTGAAGTGGACAACAATGTACGAGAGGATCGAGCCCTGTT                         AAACGGAGCACAGAAGCTACTTGGTATTTTGATAGCTGTTGGTGAGGCAGT
genomic: TCAAAGATCATTGAAGTGGACAACAATGTACGAGAGGATCGAGCCCTGTTgtatgtgcct ... tctttcccagAAACGGAGCACAGAAGCTACTTGGTATTTTGATAGCTGTTGGTGAGGCAGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tggtggcatatttgctatagactgtatattgagataacttccatttctttcccagAAACGGAGCACAGAAGCTACTTGGTATTTTGATAGCTGTTGGTGAGGCAGTTGCCTATGTTCTTTCGGGGATGTATGGTAGTGTGGGGCAACTCGGAGTA
                               agataac  putative branch site (score: 3)
                                     cttccatttctttccc  CT-rich tract
                      tgtatatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
agtatttgttgcattgtaatatttctctttgatggcactgctctatggtggcatatttgctatagactgtatattgagataacttccatttctttcccagAAACGGAGCACAGAAGCTACTTGGTATTTTGATAGCTGTTGGTGAGGCAGTTGCCTATGTTCTTTCGGGGATGTATGGTAGTGTGGGGCAACTCGGAGTA

- - - tgttgca
- - - - - - - - - - - - - - ttgatgg
- - - - - - - - - - - - - - - - - -cactgct
- - - - - - - - - - - - - - - - - - - - - - atggtgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgctata
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gactgta