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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtatcattcttatgtttccatcttctgttcatctttctttgtcttagactcttactgtgaacatcattgtcattcagGTGGTGGAGAAGACTATTCGTCCATGTCTGGTTGAGCTCAGTGAGGATCCCGATGTTGACGTGCGATTTTTCTCCAACCAAGCACTGCAGGCAATTGATC

Basic information

species Glycine max
transcript GLYMA10G42250.1
intron # 12
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|151403929|gb|EV273739.1|EV273739
EST:     TCAATGTGGCAAAGGTATTAGAGTCCATCTTCCCCATCGTTGATCAGTCT                         GTGGTGGAGAAGACTATTCGTCCATGTCTGGTTGAGCTCAGTGAGGATCCC
genomic: TCAATGTGGCAAAGGTATTAGAGTCCATCTTCCCCATCGTTGATCAGTCTgtaagtatca ... tgtcattcagGTGGTGGAGAAGACTATTCGTCCATGTCTGGTTGAGCTCAGTGAGGATCCC
EST: gi|151407658|gb|EV277473.1|EV277473
EST:     TCAATGTGGCAAAGGTATTAGAGTCCATCTTCCCCATCGTTGATCAGTCT                         GTGGTGGAGAAGACTATTCGTCCATGTCTGGTTGAGCTCAGTGAGGATCCC
genomic: TCAATGTGGCAAAGGTATTAGAGTCCATCTTCCCCATCGTTGATCAGTCTgtaagtatca ... tgtcattcagGTGGTGGAGAAGACTATTCGTCCATGTCTGGTTGAGCTCAGTGAGGATCCC
EST: gi|213605636|gb|DB976117.1|DB976117
EST:     TCAATGTGGCAAAGGTATTAGAGTCCATCTTCCCCATCGTTGATCAGTCT                         GTGGTGGAGAAGACTATTCGTCCATGTCTGGTTGAGCTCAGTGAGGATCCC
genomic: TCAATGTGGCAAAGGTATTAGAGTCCATCTTCCCCATCGTTGATCAGTCTgtaagtatca ... tgtcattcagGTGGTGGAGAAGACTATTCGTCCATGTCTGGTTGAGCTCAGTGAGGATCCC
EST: gi|14012021|gb|BG726943.1|BG726943
EST:     TCAATGTGGCAAAGGTATTAGAGTCCATCTTCCCCATCGTTTATCAGTCT                         GTGGTGGAGAAGACTATTCGTCCATGTCTGGTTGAGCTCAGTGAGGAT
genomic: TCAATGTGGCAAAGGTATTAGAGTCCATCTTCCCCATCGTTGATCAGTCTgtaagtatca ... tgtcattcagGTGGTGGAGAAGACTATTCGTCCATGTCTGGTTGAGCTCAGTGAGGAT
EST: gi|254336135|gb|GR841460.1|GR841460
EST:     TCAATGTGGCAAAGGTATTAGAGTCCATCTTCCCCATCGTTGATCAGTCT                         GTGGTGGAGAAGACTATTCGTCCATGTCTGGTTGAGCTCAGTGAGGATCCC
genomic: TCAATGTGGCAAAGGTATTAGAGTCCATCTTCCCCATCGTTGATCAGTCTgtaagtatca ... tgtcattcagGTGGTGGAGAAGACTATTCGTCCATGTCTGGTTGAGCTCAGTGAGGATCCC
EST: gi|254343718|gb|GR857474.1|GR857474
EST:     TCAATGTGGCAAAGGTATTAGAGTCCATCTTCCCCATCGTTGATCAGTCT                         GTGGTGGAGAAGACTATTCGTCCATGTCTGGTTGAGCTCAGTGAGGATCCC
genomic: TCAATGTGGCAAAGGTATTAGAGTCCATCTTCCCCATCGTTGATCAGTCTgtaagtatca ... tgtcattcagGTGGTGGAGAAGACTATTCGTCCATGTCTGGTTGAGCTCAGTGAGGATCCC
EST: gi|213587494|gb|DB979114.1|DB979114
EST:     TCAATGTCGCAAAGGTATTAGAGTCCATCTTCCCCATCGTTGATCAGTCT                         GT-GTGGTCGAAGACTATTCGTCCATGTCTGGTTGAGCTCAGTGAGGATCC
genomic: TCAATGTGGCAAAGGTATTAGAGTCCATCTTCCCCATCGTTGATCAGTCTgtaagtatca ... tgtcattcagGTGGTGG-AGAAGACTATTCGTCCATGTCTGGTTGAGCTCAGTGAGGATCC
EST: gi|18714609|gb|BM522791.1|BM522791
EST:     TCAATGTGGCAAAGGTATTAGAGTCCATCTTCCCCATCGTTGATCAGTCT                         GTGGTGGAGAAGACTATTCGTCCATGTCTGGTTGAGCTCAGTGAGGATCCC
genomic: TCAATGTGGCAAAGGTATTAGAGTCCATCTTCCCCATCGTTGATCAGTCTgtaagtatca ... tgtcattcagGTGGTGGAGAAGACTATTCGTCCATGTCTGGTTGAGCTCAGTGAGGATCCC
EST: gi|19270079|gb|BM886335.1|BM886335
EST:     TCAATGTGGCAAAGGTATTAGAGTCCATCTTCCCCATCGTTGATCAGTCT                         GTGGTGGAGAAGACTATTCGTCCATGTCTGGTTGAGCTCAGTGAGGAT
genomic: TCAATGTGGCAAAGGTATTAGAGTCCATCTTCCCCATCGTTGATCAGTCTgtaagtatca ... tgtcattcagGTGGTGGAGAAGACTATTCGTCCATGTCTGGTTGAGCTCAGTGAGGAT
EST: gi|254331031|gb|GR842296.1|GR842296
EST:     TCAATGTGGCAAAGGTATTAGAGTCCATCTTCCCCATCGTTGATCAGTCT                         GTGGTGGAGAAGACTATTCGTCCATGTCTGGTTGAGCTCAGTGAGGATCCC
genomic: TCAATGTGGCAAAGGTATTAGAGTCCATCTTCCCCATCGTTGATCAGTCTgtaagtatca ... tgtcattcagGTGGTGGAGAAGACTATTCGTCCATGTCTGGTTGAGCTCAGTGAGGATCCC
EST: gi|16105352|gb|BI893092.1|BI893092
EST:     TCAATGTGGCAAAGGTATTAGAGTCCATCTTCCCCATCGCTGATCAGTCT                         GTGGTGGAGAAAACTATTC
genomic: TCAATGTGGCAAAGGTATTAGAGTCCATCTTCCCCATCGTTGATCAGTCTgtaagtatca ... tgtcattcagGTGGTGGAGAAGACTATTC
EST: gi|209719392|gb|BW674472.1|BW674472
EST:     TCAATGTGGCAAAGGTATTAGAGTCCATCTTCCCCATCGTTGATCAGTCT                         GTGGTGGAGAAGACTATTCGTCCATGTCTGGTTGAGCTCAGTGAGGATCCC
genomic: TCAATGTGGCAAAGGTATTAGAGTCCATCTTCCCCATCGTTGATCAGTCTgtaagtatca ... tgtcattcagGTGGTGGAGAAGACTATTCGTCCATGTCTGGTTGAGCTCAGTGAGGATCCC
EST: gi|254343474|gb|GR857230.1|GR857230
EST:     TCAATGTGGCAAAGGTATTAGAGTCCATCTTCCCCATCGTTGATCAGTCT                         GTGGTGGAGAAGACTATTCGTCCATGTCTGGTTGAGCTCAGTGAGGATCCC
genomic: TCAATGTGGCAAAGGTATTAGAGTCCATCTTCCCCATCGTTGATCAGTCTgtaagtatca ... tgtcattcagGTGGTGGAGAAGACTATTCGTCCATGTCTGGTTGAGCTCAGTGAGGATCCC
EST: gi|254343473|gb|GR857229.1|GR857229
EST:     TCAATGTGGCAAAGGTATTAGAGTCCATCTTCCCCATCGTTGATCAGTCT                         GTGGTGGAGAAGACTATTCGTCCATGTCTGGTTGAGCTCAGTGAGGATCCC
genomic: TCAATGTGGCAAAGGTATTAGAGTCCATCTTCCCCATCGTTGATCAGTCTgtaagtatca ... tgtcattcagGTGGTGGAGAAGACTATTCGTCCATGTCTGGTTGAGCTCAGTGAGGATCCC
EST: gi|17400839|gb|BM177621.1|BM177621
EST:     TCAATGTGGCAAAGGTATTAGAGTCCATCTTCCCCATCGTTGATCAGTCT                         GTGGTGGAGAAGACTATTCGTCCATGTCTGGTTGAGCTCAGTGAGGAT
genomic: TCAATGTGGCAAAGGTATTAGAGTCCATCTTCCCCATCGTTGATCAGTCTgtaagtatca ... tgtcattcagGTGGTGGAGAAGACTATTCGTCCATGTCTGGTTGAGCTCAGTGAGGAT
EST: gi|26059184|gb|CA802098.1|CA802098
EST:     TCAATGTGGCAAAGGTATTAGAGTCCATCTTCCCCATCGTTGATCAGTCT                         GTGGTGGAGAAGACTATTCGTCCATGTCTGGTTGAGCTCAGTGAGGATCCC
genomic: TCAATGTGGCAAAGGTATTAGAGTCCATCTTCCCCATCGTTGATCAGTCTgtaagtatca ... tgtcattcagGTGGTGGAGAAGACTATTCGTCCATGTCTGGTTGAGCTCAGTGAGGATCCC
EST: gi|193693127|gb|FK633732.1|FK633732
EST:     TCAATGTGGCAAAGGTATTAGAGTCCATCTTCCCCATCGTTGATCAGTCT                         GTGGTGGAGAAGACTATTCGTCCATGTCT
genomic: TCAATGTGGCAAAGGTATTAGAGTCCATCTTCCCCATCGTTGATCAGTCTgtaagtatca ... tgtcattcagGTGGTGGAGAAGACTATTCGTCCATGTCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttctgttcatctttctttgtcttagactcttactgtgaacatcattgtcattcagGTGGTGGAGAAGACTATTCGTCCATGTCTGGTTGAGCTCAGTGAGGATCCCGATGTTGACGTGCGATTTTTCTCCAACCAAGCACTGCAGGCAATTGATC
                          ctcttac  putative branch site (score: 3)
           tttcttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagtatcattcttatgtttccatcttctgttcatctttctttgtcttagactcttactgtgaacatcattgtcattcagGTGGTGGAGAAGACTATTCGTCCATGTCTGGTTGAGCTCAGTGAGGATCCCGATGTTGACGTGCGATTTTTCTCCAACCAAGCACTGCAGGCAATTGATC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGCAG