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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtactataaaattttagttgatgattgattgtattgtattatgctcttatattatttatttaatatttccaaattaaatgatctcgtgattattcaacagCTACAGAGAAGAGACATCGTGTTCCTTCTGCTTATAATCGCTTCATTAA

Basic information

species Glycine max
transcript GLYMA12G10210.1
intron # 3
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|192314512|gb|FK008104.1|FK008104
EST:     GCCATTTGAGGCAGTAGAGCATGAACTACCTAGGATTCCTCCCATTCGTC                         CTACAGAGAAGAGACATCGTGTTCCTTCTGCTTATAATCGCTTCATTAA
genomic: GCCATTTGAGGCAGTAGAGCATGAACTACCTAGGATTCCTCCCATTCGTCgtgagccctc ... tattcaacagCTACAGAGAAGAGACATCGTGTTCCTTCTGCTTATAATCGCTTCATTAA
EST: gi|27425967|gb|CA937487.1|CA937487
EST:     GCCATTTGAGGCAGTAGAGCATGAACTACCTAGGATTCCTCCCATTCGTC                         CTACAGAGAAGAGACATCGTGTTCCTTCTGCTTATAATCGCTTCATTAA
genomic: GCCATTTGAGGCAGTAGAGCATGAACTACCTAGGATTCCTCCCATTCGTCgtgagccctc ... tattcaacagCTACAGAGAAGAGACATCGTGTTCCTTCTGCTTATAATCGCTTCATTAA
EST: gi|31474066|gb|CD416094.1|CD416094
EST:     GCCATTTGAGCCAGTAGAGCATGAACTACCTAGGATTCCTCCCATTCGTC                         CTACAGAGAAGAGACATCGTGTTCCTTCTGCTTATAATCGCTTCATTAA
genomic: GCCATTTGAGGCAGTAGAGCATGAACTACCTAGGATTCCTCCCATTCGTCgtgagccctc ... tattcaacagCTACAGAGAAGAGACATCGTGTTCCTTCTGCTTATAATCGCTTCATTAA
EST: gi|298193194|gb|HO033628.1|HO033628
EST:     GCCATTTGAGGCAGTAGAGCATGAACTACCTAGGATTCCTCCCATTCGTC                         CTACAGAGAAGAGACATCGTGTTCCTTCTGCTTATAATCGCTTCATTAA
genomic: GCCATTTGAGGCAGTAGAGCATGAACTACCTAGGATTCCTCCCATTCGTCgtgagccctc ... tattcaacagCTACAGAGAAGAGACATCGTGTTCCTTCTGCTTATAATCGCTTCATTAA
EST: gi|192314511|gb|FK008103.1|FK008103
EST:     GCCATTTGAGGCAGTAGAGCATGAACTACCTAGGATTCCTCCCATTCGTC                         CTACAGAGAAGAGACATCGTGTTCCTTCTGCTTATAATCGCTTCATTAA
genomic: GCCATTTGAGGCAGTAGAGCATGAACTACCTAGGATTCCTCCCATTCGTCgtgagccctc ... tattcaacagCTACAGAGAAGAGACATCGTGTTCCTTCTGCTTATAATCGCTTCATTAA
EST: gi|13788666|gb|BG651257.1|BG651257
EST:     GCCATTTGAGGCAGTAGAGCATGAACTACCTAGGATTCCTCCCATTCGTC                         CTACAGAGAAGAGACATCGTGTTCCTTCTGCTTATAATCGCTTCATTAA
genomic: GCCATTTGAGGCAGTAGAGCATGAACTACCTAGGATTCCTCCCATTCGTCgtgagccctc ... tattcaacagCTACAGAGAAGAGACATCGTGTTCCTTCTGCTTATAATCGCTTCATTAA
EST: gi|31467872|gb|CD409900.1|CD409900
EST:     GCCATTTGAGNCAGTAGAGCATGAACTACCTAGGATTCCTCCCATTCGTC                         CTACAGAGAAGAGACATCGTGTTCCTTCTGCTTATAATCGCTTCATTAA
genomic: GCCATTTGAGGCAGTAGAGCATGAACTACCTAGGATTCCTCCCATTCGTCgtgagccctc ... tattcaacagCTACAGAGAAGAGACATCGTGTTCCTTCTGCTTATAATCGCTTCATTAA
EST: gi|192299092|gb|FG990406.1|FG990406
EST:     GCCATTTGAGGCAGTAGAGCATGAACTACCTAGGATTCCTCCCATTCGTC                         CTACAGAGAAGAGACATCGTGTTCCTTCTGCTTATAATCGCTTCATTAA
genomic: GCCATTTGAGGCAGTAGAGCATGAACTACCTAGGATTCCTCCCATTCGTCgtgagccctc ... tattcaacagCTACAGAGAAGAGACATCGTGTTCCTTCTGCTTATAATCGCTTCATTAA
EST: gi|209725577|gb|BW677879.1|BW677879
EST:     AGGCAGTAGAGCATGAACTACCTAGGATTCCTCCCATTCGTC                         CTACAGAGAAGAGACATCGTGTTCCTTCTGCTTATAATCGCTTCATTAA
genomic: AGGCAGTAGAGCATGAACTACCTAGGATTCCTCCCATTCGTCgtgagccctc ... tattcaacagCTACAGAGAAGAGACATCGTGTTCCTTCTGCTTATAATCGCTTCATTAA
EST: gi|298182663|gb|HO031398.1|HO031398
EST:     GCCATTTGAGGCAGTAGAGCATGAACTACCTAGGATTCCTCCCATTCGTC                         CTACAGAGAAGAGACATCGTGTTCCTTCTGCTTATAATCGCTTCATTAA
genomic: GCCATTTGAGGCAGTAGAGCATGAACTACCTAGGATTCCTCCCATTCGTCgtgagccctc ... tattcaacagCTACAGAGAAGAGACATCGTGTTCCTTCTGCTTATAATCGCTTCATTAA
EST: gi|31471406|gb|CD413434.1|CD413434
EST:     GCCATTTGAGGCAGTAGAGCATGAACTACCTAGGATTCCTCCCATTCGTC                         CTACAGAGAAGAGACATCGTGTTCCTTCTGCTTATAATCGCTTCATTAA
genomic: GCCATTTGAGGCAGTAGAGCATGAACTACCTAGGATTCCTCCCATTCGTCgtgagccctc ... tattcaacagCTACAGAGAAGAGACATCGTGTTCCTTCTGCTTATAATCGCTTCATTAA
EST: gi|23057436|gb|BU578110.1|BU578110
EST:     GCCATTTGAGGCAGTAGAGCATGAACTACCTAGGATTCCTCCCATTCGTC                         CTACAGAGAAGAGACATCGTGTTCCTTCTGCTTATAATCGCTTCATTAA
genomic: GCCATTTGAGGCAGTAGAGCATGAACTACCTAGGATTCCTCCCATTCGTCgtgagccctc ... tattcaacagCTACAGAGAAGAGACATCGTGTTCCTTCTGCTTATAATCGCTTCATTAA
EST: gi|7691759|gb|AW759880.1|AW759880
EST:     GCCATTTGAGGCAGTAGAGCATGAACTACCTAGGATTCCTCCCATTCGTC                         CTACAGAGAAGAGACATCGTGTTCCTTCTGCTTATAATCGCTTCATTAA
genomic: GCCATTTGAGGCAGTAGAGCATGAACTACCTAGGATTCCTCCCATTCGTCgtgagccctc ... tattcaacagCTACAGAGAAGAGACATCGTGTTCCTTCTGCTTATAATCGCTTCATTAA
EST: gi|298183030|gb|HO028293.1|HO028293
EST:     GCCATTTGAGGCAGTGGAGCATGAACTACCTAGGATTCCTCCCATTCGTC                         CTACAGAGAAGAGACATCGTGTTCCTTCTGCTTATAATCGCTTCATTAA
genomic: GCCATTTGAGGCAGTAGAGCATGAACTACCTAGGATTCCTCCCATTCGTCgtgagccctc ... tattcaacagCTACAGAGAAGAGACATCGTGTTCCTTCTGCTTATAATCGCTTCATTAA
EST: gi|209702927|gb|BW667449.1|BW667449
EST:     AGGCAGTAGAGCATGAACTACCTAGGATTCCTCCCATTCGTC                         CTACAGAGAAGAGACATCGTGTTCCTTCTGCTTATAATCGCTTCATTAA
genomic: AGGCAGTAGAGCATGAACTACCTAGGATTCCTCCCATTCGTCgtgagccctc ... tattcaacagCTACAGAGAAGAGACATCGTGTTCCTTCTGCTTATAATCGCTTCATTAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttatattatttatttaatatttccaaattaaatgatctcgtgattattcaacagCTACAGAGAAGAGACATCGTGTTCCTTCTGCTTATAATCGCTTCATTAA
            atttaat  putative branch site (score: 4)
     attatttatttaatat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtactataaaattttagttgatgattgattgtattgtattatgctcttatattatttatttaatatttccaaattaaatgatctcgtgattattcaacagCTACAGAGAAGAGACATCGTGTTCCTTCTGCTTATAATCGCTTCATTAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA