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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatagtacatccttcactaatacgcttcactttaataccaaaaaagaaaatcgacaataaattcacttatttgaggaataactgtatttattcctgttgcagACACTAAGTCAAGCATTGGCCACAGCCAGGGAACATCTTGCAAGGTCCCTTCTTAAATGATTCATATGGCATTTCACAATGACGGAGGAAACTTGTCTTT

Basic information

species Glycine max
transcript GLYMA15G13190.3
intron # 5
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|151408791|gb|EV278599.1|EV278599
EST:     GGAAAGTTGCTAGTAATAGTATAGATTCTGGAGCTCCTTTGTCCGAACAG                         ACACTAAGTCAAGCATTGGCCACAGCCAGGGAACATCTTGCAAGGTCCCTT
genomic: GGAAAGTTGCTAGTAATAGTATAGATTCTGGAGCTCCTTTGTCCGAACAGgtatagtaca ... cctgttgcagACACTAAGTCAAGCATTGGCCACAGCCAGGGAACATCTTGCAAGGTCCCTT
EST: gi|192325778|gb|FK018000.1|FK018000
EST:     GGAAAGTTGCTAGTAATAGTATAGATTCTGGAGCTCCTTTGTCCGAACAG                         ACACTAAGTCAAGCATTAGCCACAGCCAGGGAACATCTTGCAAGGTCCCTT
genomic: GGAAAGTTGCTAGTAATAGTATAGATTCTGGAGCTCCTTTGTCCGAACAGgtatagtaca ... cctgttgcagACACTAAGTCAAGCATTGGCCACAGCCAGGGAACATCTTGCAAGGTCCCTT
EST: gi|41145498|gb|CK605709.1|CK605709
EST:     GGAAAGTTGCTAGTAATAGTATAGATTCTGGAGCTCCTTTGTCCGAACAG                         ACACTAAGTCAAGCATTGGCCACAGCCAGGGAACATCTTGCAAGGTCCCTT
genomic: GGAAAGTTGCTAGTAATAGTATAGATTCTGGAGCTCCTTTGTCCGAACAGgtatagtaca ... cctgttgcagACACTAAGTCAAGCATTGGCCACAGCCAGGGAACATCTTGCAAGGTCCCTT
EST: gi|20814390|gb|BQ298868.1|BQ298868
EST:     GGAAAGTTGCTAGTAATAGTATAGATTCTGGAGCTCCTTTGTCCGAACAG                         ACACTAAGTCAAGCATTGGCCACAGCCAGGGAACATCTTGCAAGGTCCCTT
genomic: GGAAAGTTGCTAGTAATAGTATAGATTCTGGAGCTCCTTTGTCCGAACAGgtatagtaca ... cctgttgcagACACTAAGTCAAGCATTGGCCACAGCCAGGGAACATCTTGCAAGGTCCCTT
EST: gi|208246710|gb|GE046240.1|GE046240
EST:     GGAAAGTTGCTAGTAATAGTATAGATTCTGGAGCTCCTTTGTCCGAACAG                         ACTCTAAGTCAAGCATTGGCCACAGCCAGGGAACATCTTGCAAGGTCCCTT
genomic: GGAAAGTTGCTAGTAATAGTATAGATTCTGGAGCTCCTTTGTCCGAACAGgtatagtaca ... cctgttgcagACACTAAGTCAAGCATTGGCCACAGCCAGGGAACATCTTGCAAGGTCCCTT
EST: gi|58014334|gb|CX701076.1|CX701076
EST:     GGAAAGTTGCTAGTAATAGTATAGATTCTGGAGCTCCTTTGTCCGAACAG                         ACACTAAGTCAAGCATTGGCCACAGCCAGGGAACATCTTGCAAGGTCCCTT
genomic: GGAAAGTTGCTAGTAATAGTATAGATTCTGGAGCTCCTTTGTCCGAACAGgtatagtaca ... cctgttgcagACACTAAGTCAAGCATTGGCCACAGCCAGGGAACATCTTGCAAGGTCCCTT
EST: gi|151408109|gb|EV277917.1|EV277917
EST:     GGAAAGTTGCTAGTAATAGTATAGATTCTGGAGCTCCTTTGTCCGAACAG                         ACACTAAGTCAAGCATTAGCCACAGCCAGGGAACATCTTGCAAGGTCCCTT
genomic: GGAAAGTTGCTAGTAATAGTATAGATTCTGGAGCTCCTTTGTCCGAACAGgtatagtaca ... cctgttgcagACACTAAGTCAAGCATTGGCCACAGCCAGGGAACATCTTGCAAGGTCCCTT
EST: gi|192294109|gb|FG986198.1|FG986198
EST:     GGAAAGTTGCTAGTAATAGTATAGATTCTGGAGCTCCTTTGTCCGAACAG                         ACACTAAGTCAAGCATTGGCCACAGCCAGGGAACATCTTGCAAGGTCCCTT
genomic: GGAAAGTTGCTAGTAATAGTATAGATTCTGGAGCTCCTTTGTCCGAACAGgtatagtaca ... cctgttgcagACACTAAGTCAAGCATTGGCCACAGCCAGGGAACATCTTGCAAGGTCCCTT
EST: gi|207780333|gb|GD752142.1|GD752142
EST:     AAAGTTGCTTAGTAATAGTATAGATTTCTGGAGCTCCTTTGTCCGAACAG                         ACTCTAAGTCAAGCATTGGCCACAGCCAGGGAACATCTTGCAAGGTCCCTT
genomic: AAAGTTGC-TAGTAATAGTATAGA-TTCTGGAGCTCCTTTGTCCGAACAGgtatagtaca ... cctgttgcagACACTAAGTCAAGCATTGGCCACAGCCAGGGAACATCTTGCAAGGTCCCTT
EST: gi|209704906|gb|BW661709.1|BW661709
EST:     GGAAAGTTGCTAGTAATAGTATAGATTCTGGAGCTCCTTTGTCCGAACAG                         ACTCTAAGTCAAGCATTGGCCACAGCCAGGGAACATCTTGCAAGGTCCCTT
genomic: GGAAAGTTGCTAGTAATAGTATAGATTCTGGAGCTCCTTTGTCCGAACAGgtatagtaca ... cctgttgcagACACTAAGTCAAGCATTGGCCACAGCCAGGGAACATCTTGCAAGGTCCCTT
EST: gi|58017732|gb|CX704474.1|CX704474
EST:     GGAAAGTTGCTAGTAATAGTATAGATTCTGGAGCTCCTTTGTCCGAACAG                         ACACTAAGTCAAGCATTGGCCACAGCCAGGGAACATCTTGCAAGGTCCCTT
genomic: GGAAAGTTGCTAGTAATAGTATAGATTCTGGAGCTCCTTTGTCCGAACAGgtatagtaca ... cctgttgcagACACTAAGTCAAGCATTGGCCACAGCCAGGGAACATCTTGCAAGGTCCCTT
EST: gi|23729019|gb|BU762586.1|BU762586
EST:     GGAAAGTTGCTAGTAATAGTATAGATTCTGGAGCTCCTTTGTCCGAACAG                         ACACTAAGTCAAGCATTGGCCACAGCCAGGGAACATCTTGCAAGGTCCCTT
genomic: GGAAAGTTGCTAGTAATAGTATAGATTCTGGAGCTCCTTTGTCCGAACAGgtatagtaca ... cctgttgcagACACTAAGTCAAGCATTGGCCACAGCCAGGGAACATCTTGCAAGGTCCCTT
EST: gi|193728955|gb|FK665623.1|FK665623
EST:     GGAAAGTTGCTAGTAATAGTATAGATTCTGGAGCTCCTTTGTCCGAACAG                         ACTCTAAGTCAAGCATTGGCCACA
genomic: GGAAAGTTGCTAGTAATAGTATAGATTCTGGAGCTCCTTTGTCCGAACAGgtatagtaca ... cctgttgcagACACTAAGTCAAGCATTGGCCACA
EST: gi|193661760|gb|FK606550.1|FK606550
EST:     GGAAAGTTGCTAGTAATAGTACAGATTCTGGAGCTCCTTTGTCCGAACAG                         ACTCTAAGTCAAGCATTGGCCACAGCCAGGGAACATCTTGCAAGGTCCCTT
genomic: GGAAAGTTGCTAGTAATAGTATAGATTCTGGAGCTCCTTTGTCCGAACAGgtatagtaca ... cctgttgcagACACTAAGTCAAGCATTGGCCACAGCCAGGGAACATCTTGCAAGGTCCCTT
EST: gi|193675352|gb|FK619114.1|FK619114
EST:     GGAAAGTTGCTAGTAATAGTATAGATTCTGGAGCTCCTTTGTCCGAACAG                         ACTCTAAGTCAAGCATTGGCCACAGCCAGGGAACATCTTGCAAGGTCCCTT
genomic: GGAAAGTTGCTAGTAATAGTATAGATTCTGGAGCTCCTTTGTCCGAACAGgtatagtaca ... cctgttgcagACACTAAGTCAAGCATTGGCCACAGCCAGGGAACATCTTGCAAGGTCCCTT
EST: gi|193700488|gb|FK635509.1|FK635509
EST:     GGAAAGTTGCTAGTAATAGTATAGATTCTGGAGCTCCTTTGTCCGAACAG                         ACTCTAAGTCAAGCATTGGCCACAGCCAGGGAACATCTTGCAAGGTCCCTT
genomic: GGAAAGTTGCTAGTAATAGTATAGATTCTGGAGCTCCTTTGTCCGAACAGgtatagtaca ... cctgttgcagACACTAAGTCAAGCATTGGCCACAGCCAGGGAACATCTTGCAAGGTCCCTT
EST: gi|298175469|gb|HO015102.1|HO015102
EST:     GGAAAGTTGCTAGTAATAGTATAGATTCTGGAGCTCCTTTGTCCGAACAG                         ACTCTAAGTCAAGCATTGGCCACAGC
genomic: GGAAAGTTGCTAGTAATAGTATAGATTCTGGAGCTCCTTTGTCCGAACAGgtatagtaca ... cctgttgcagACACTAAGTCAAGCATTGGCCACAGC
EST: gi|209704905|gb|BW661708.1|BW661708
EST:     GGAAAGTTGCTAGTAATAGTATAGATTCTGGAGCTCCTTTGTCCGAACAG                         ACTCTAAGTCAAGCATTGGCCACAGCCAGGGAACATCTTGCAAGGTCCCTT
genomic: GGAAAGTTGCTAGTAATAGTATAGATTCTGGAGCTCCTTTGTCCGAACAGgtatagtaca ... cctgttgcagACACTAAGTCAAGCATTGGCCACAGCCAGGGAACATCTTGCAAGGTCCCTT
EST: gi|193558188|gb|FK514881.1|FK514881
EST:     GGAAAGTTGCTAGTAATAGTATAGATTCTGGAGCTCCTTTGTCCGAACAG                         ACTCTAAGTCAAGCATTGGCCACAGCCAGGGAACATCTTGCAAGGTCCCTT
genomic: GGAAAGTTGCTAGTAATAGTATAGATTCTGGAGCTCCTTTGTCCGAACAGgtatagtaca ... cctgttgcagACACTAAGTCAAGCATTGGCCACAGCCAGGGAACATCTTGCAAGGTCCCTT
EST: gi|27425032|gb|CA936552.1|CA936552
EST:     GGAAAGTTGCTAGTAATAGTATAGATTCTGGAGCTCCTTTGTCCGAACAG                         ACACTAAGTCAAGCATTAGCCACAGCCAGGGAACATCTTGCAAGGTCCCTT
genomic: GGAAAGTTGCTAGTAATAGTATAGATTCTGGAGCTCCTTTGTCCGAACAGgtatagtaca ... cctgttgcagACACTAAGTCAAGCATTGGCCACAGCCAGGGAACATCTTGCAAGGTCCCTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaatcgacaataaattcacttatttgaggaataactgtatttattcctgttgcagACACTAAGTCAAGCATTGGCCACAGCCAGGGAACATCTTGCAAGGTCCCTTCTTAAATGATTCATATGGCATTTCACAATGACGGAGGAAACTTGTCTTT
                            gaataac  putative branch site (score: 2)
                                       tttattcct  putative PPT
        aataaattcacttatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatagtacatccttcactaatacgcttcactttaataccaaaaaagaaaatcgacaataaattcacttatttgaggaataactgtatttattcctgttgcagACACTAAGTCAAGCATTGGCCACAGCCAGGGAACATCTTGCAAGGTCCCTTCTTAAATGATTCATATGGCATTTCACAATGACGGAGGAAACTTGTCTTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA