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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtaagttttattgttaattaatgtacggttgaaattctaagaacaatattcgttatttataaaattcttcactcctttttttttttgtagcaactagCCATGCCTTCTTGCCTTTCCGAACATTGATATCATGCCTCGTTCATGGAATGCAAATTTGCACGCAAGCAATATTATGATGGCTGCAGTTGACTATCGTG

Basic information

species Glycine max
transcript GLYMA11G11960.1
intron # 13
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|214005069|gb|DB985679.1|DB985679
EST:     GGTTTCCATCATTTTTTCTTATCTGTCTGCTAGCCACCAAAATAACTAGT                         CAACTAGCCATGCCTTCTTGCCTTTCCGAACATTGATATCATGCCTCGTTC
genomic: GGTTTCCATCATTTTTTCTTATCTGTCTGCTAGCCACCAAAATAACTAGTgtaagtaagt ... tagcaactagC--C-A----TGCCTTCTTGCCTTTCCGAACATTGATATCATGCCTCGTTC
EST: gi|17153400|gb|BM143333.1|BM143333
EST:     GGTTTCCATCATTTTTGCTTATCTGTCTGCTAACCACCAAAATAACTAGT                         CCATGCCTTCTTGCCTTTC
genomic: GGTTTCCATCATTTTTTCTTATCTGTCTGCTAGCCACCAAAATAACTAGTgtaagtaagt ... tagcaactagCCATGCCTTCTTGCCTTTC
EST: gi|209722770|gb|BW682868.1|BW682868
EST:     GGTTTCCATCATTTTTTCTTATCTGTCTGCTAGCCACCAAAATAACTAGTCAACT                     
genomic: GGTTTCCATCATTTTTTCTTATCTGTCTGCTAGCCACCAAAATAACTAG-----Tgtaagtaagt ... tagcaa
EST: gi|209722770|gb|BW682868.1|BW682868
EST:     GGTTTCCATCATTTTTTCTTATCTGTCTGCTAGCCACCAAAATAACTAGTCAACT                     
genomic: GGTTTCCATCATTTTTTCTTATCTGTCTGCTAGCCACCAAAATAACTAG-----Tgtaagtaagt ... tagcaa
EST: gi|209722770|gb|BW682868.1|BW682868
EST:     GGTTTCCATCATTTTTTCTTATCTGTCTGCTAGCCACCAAAATAACTAGTCAACT                     
genomic: GGTTTCCATCATTTTTTCTTATCTGTCTGCTAGCCACCAAAATAACTAG-----Tgtaagtaagt ... tagcaa
EST: gi|209714967|gb|BW650813.1|BW650813
EST:     GGTTTCCATCATTTTTTCTTATCTGTCTGCTAGCCACCAAAATAACTAGT                         CAACTAGCCATGCCTTCTTGCCTTTCCGAACATTGATATCATGCCTCGTTC
genomic: GGTTTCCATCATTTTTTCTTATCTGTCTGCTAGCCACCAAAATAACTAGTgtaagtaagt ... tagcaactagC--C-A----TGCCTTCTTGCCTTTCCGAACATTGATATCATGCCTCGTTC
EST: gi|9899890|gb|BE608858.1|BE608858
EST:     GGTTTCCATCATTTTTTCTTATCTGTCTGCTAGCCACCAAAATAACTAGT                         CAACTAGCCATGCCTTCTTGCCTTTCCGAACATTGATATCATGCCTCGTTC
genomic: GGTTTCCATCATTTTTTCTTATCTGTCTGCTAGCCACCAAAATAACTAGTgtaagtaagt ... tagcaactagC--C-A----TGCCTTCTTGCCTTTCCGAACATTGATATCATGCCTCGTTC
EST: gi|120491021|gb|EH219188.1|EH219188
EST:     GGTTTCCATCATTTTTTCTTATCTGTCTGCTAGCCACCAAAATAACTAGT                         G
genomic: GGTTTCCATCATTTTTTCTTATCTGTCTGCTAGCCACCAAAATAACTAGTgtaagtaagt ... tagcaactag-
EST: gi|120491021|gb|EH219188.1|EH219188
EST:     GGTTTCCATCATTTTTTCTTATCTGTCTGCTAGCCACCAAAATAACTAGT                         G
genomic: GGTTTCCATCATTTTTTCTTATCTGTCTGCTAGCCACCAAAATAACTAGTgtaagtaagt ... tagcaactag-
EST: gi|120491021|gb|EH219188.1|EH219188
EST:     GGTTTCCATCATTTTTTCTTATCTGTCTGCTAGCCACCAAAATAACTAGT                         G
genomic: GGTTTCCATCATTTTTTCTTATCTGTCTGCTAGCCACCAAAATAACTAGTgtaagtaagt ... tagcaactag-
EST: gi|120491021|gb|EH219188.1|EH219188
EST:     GGTTTCCATCATTTTTTCTTATCTGTCTGCTAGCCACCAAAATAACTAGT                         G
genomic: GGTTTCCATCATTTTTTCTTATCTGTCTGCTAGCCACCAAAATAACTAGTgtaagtaagt ... tagcaactag-
EST: gi|120491021|gb|EH219188.1|EH219188
EST:     GGTTTCCATCATTTTTTCTTATCTGTCTGCTAGCCACCAAAATAACTAGT                         G
genomic: GGTTTCCATCATTTTTTCTTATCTGTCTGCTAGCCACCAAAATAACTAGTgtaagtaagt ... tagcaactag-
EST: gi|22930235|gb|BU547374.1|BU547374
EST:     GGTTTCCATCATTTTTGCTTATCTGTCTGCTAGCCACCAAAATAACTAGT                         CAACTAGCCATGCCTTCTTGCCTTTCCGAACATTGATATCATGCCTCGTTC
genomic: GGTTTCCATCATTTTTTCTTATCTGTCTGCTAGCCACCAAAATAACTAGTgtaagtaagt ... tagcaactagC--C-A----TGCCTTCTTGCCTTTCCGAACATTGATATCATGCCTCGTTC
EST: gi|58014892|gb|CX701634.1|CX701634
EST:     GGTTTCCATCATTTTTTCTTATCTGTCTGCTAGCCACCAAAATAACTAGT                         CAACTAGCCATGCCTTCTTGCCTTTCCGAACATTGATATCATGCCTCGTTC
genomic: GGTTTCCATCATTTTTTCTTATCTGTCTGCTAGCCACCAAAATAACTAGTgtaagtaagt ... tagcaactagC--C-A----TGCCTTCTTGCCTTTCCGAACATTGATATCATGCCTCGTTC
EST: gi|209726038|gb|BW672761.1|BW672761
EST:     GGTTTCCATCATTTTTTCTTATCTGTCTGCTAGCCACCAAAATAACTAGT                         CAACTAGCCATGCCTTCTTGCCTTTCCGAACATTGATATCATGCCTCGTTC
genomic: GGTTTCCATCATTTTTTCTTATCTGTCTGCTAGCCACCAAAATAACTAGTgtaagtaagt ... tagcaactagC--C-A----TGCCTTCTTGCCTTTCCGAACATTGATATCATGCCTCGTTC
EST: gi|9899883|gb|BE608851.1|BE608851
EST:     GGTTTCCATCATTTTTTCTTATCTGTCTGCTAGCCACCAAAATAACTAGT                         CAACTAGCCATGCCTTCTTGCCTTTCCGAACATTGATATCATGCCTCGTTC
genomic: GGTTTCCATCATTTTTTCTTATCTGTCTGCTAGCCACCAAAATAACTAGTgtaagtaagt ... tagcaactagC--C-A----TGCCTTCTTGCCTTTCCGAACATTGATATCATGCCTCGTTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acaatattcgttatttataaaattcttcactcctttttttttttgtagcaactagCCATGCCTTCTTGCCTTTCCGAACATTGATATCATGCCTCGTTCATGGAATGCAAATTTGCACGCAAGCAATATTATGATGGCTGCAGTTGACTATCGTG
                      ttcttcactccttttt  CT-rich tract
          ttatttataaaattct  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagtaagttttattgttaattaatgtacggttgaaattctaagaacaatattcgttatttataaaattcttcactcctttttttttttgtagcaactagCCATGCCTTCTTGCCTTTCCGAACATTGATATCATGCCTCGTTCATGGAATGCAAATTTGCACGCAAGCAATATTATGATGGCTGCAGTTGACTATCGTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGCAG