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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacattttgtactgaagtttgtatctgtttctaatttgattgaggttatatgtcattgtgatttctgtattttccattttgtttttactcagATATATTCAAGCCAGACCCCAATTTCCTGGAGAATGAGAAGCGTTATGAAGAGTTGAAGAAATCAATGCTGGGTGAGGAATCTGAAGATGATGAGGAAGG

Basic information

species Glycine max
transcript GLYMA08G41440.2
intron # 7
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|193655790|gb|FK601448.1|FK601448
EST:     AACTCATGAAGTCTCCTTGGATGAGGAGATAGATCCCGAGATTTCCCTTG                         ATATATTCAAGCCAGACCCCAATTTCCTGGAGAATGAGAAGCGTTATGAAG
genomic: AACTCATGAAGTCTCCTTGGATGAGGAGATAGATCCCGAGATTTCCCTTGgtacattttg ... ttttactcagATATATTCAAGCCAGACCCCAATTTCCTGGAGAATGAGAAGCGTTATGAAG
EST: gi|208093601|gb|GD893620.1|GD893620
EST:     AACTCATGAAGTCTCCTTGGATGAGGAGATAGATCCCGAGATTTCCCTTG                         ATATATTCAAGCCAAGAACCCCAATTTCCTGGAGAATGAGAAGCGTTATGA
genomic: AACTCATGAAGTCTCCTTGGATGAGGAGATAGATCCCGAGATTTCCCTTGgtacattttg ... ttttactcagATATATTCAAGCCA-GA-CCCCAATTTCCTGGAGAATGAGAAGCGTTATGA
EST: gi|193384330|gb|FK351792.1|FK351792
EST:     AACTCATGAAGTCTCCTTGGATGAGGAGATAGATCCCGAGATTTCCCTTG                         ATATATTCAAGCCAGACCCCAATTTCCTGGAGAATGAGAAGCGTTATGAAG
genomic: AACTCATGAAGTCTCCTTGGATGAGGAGATAGATCCCGAGATTTCCCTTGgtacattttg ... ttttactcagATATATTCAAGCCAGACCCCAATTTCCTGGAGAATGAGAAGCGTTATGAAG
EST: gi|193350487|gb|FK317491.1|FK317491
EST:     AACTCATGAAGTCTCCTTGGATGAGGAGATAGATCCCGAGATTTCCCTTG                         ATATATTCAAGCCAGACCCCAATTTCCTGGAGAATGAGAAGCGTTATGAAG
genomic: AACTCATGAAGTCTCCTTGGATGAGGAGATAGATCCCGAGATTTCCCTTGgtacattttg ... ttttactcagATATATTCAAGCCAGACCCCAATTTCCTGGAGAATGAGAAGCGTTATGAAG
EST: gi|193331807|gb|FK296291.1|FK296291
EST:     AACTCATGAAGTCTCCTTGGATGAGGAGATAGATCCCGAGATTTCCCTTG                         ATATATTCAAGCCAGACCCCAATTTCCTGGAGAATGAGAAGCGTTATGAAG
genomic: AACTCATGAAGTCTCCTTGGATGAGGAGATAGATCCCGAGATTTCCCTTGgtacattttg ... ttttactcagATATATTCAAGCCAGACCCCAATTTCCTGGAGAATGAGAAGCGTTATGAAG
EST: gi|193627644|gb|FK576314.1|FK576314
EST:     AACTCATGAAGTCTCCTTGGATGAGGAGATAGATTCCGAGATTTCCCTTG                         ATATATTCAAGCCAGACCCCAATTTCCTGGAGAATGAGAAGCGTTATGAAG
genomic: AACTCATGAAGTCTCCTTGGATGAGGAGATAGATCCCGAGATTTCCCTTGgtacattttg ... ttttactcagATATATTCAAGCCAGACCCCAATTTCCTGGAGAATGAGAAGCGTTATGAAG
EST: gi|193422593|gb|FK390192.1|FK390192
EST:     AACTCATGAAGTCTCCTTGGATGAGGAGATAGATCCCGAGATTTCCCTTG                         ATATATTCAAGCCAGACCCCAATTTCCTGGAGAATGAGAAGCGTTATGAAG
genomic: AACTCATGAAGTCTCCTTGGATGAGGAGATAGATCCCGAGATTTCCCTTGgtacattttg ... ttttactcagATATATTCAAGCCAGACCCCAATTTCCTGGAGAATGAGAAGCGTTATGAAG
EST: gi|193463794|gb|FK427018.1|FK427018
EST:     AACTCATGAAGTCTCCTTGGATGAGGAGATAGATCCCGAGATTTCCCTTG                         ATATATTCAAGCCAGACCCCAATTTCCTGGAGAATGAGAAGCGTTATGAAG
genomic: AACTCATGAAGTCTCCTTGGATGAGGAGATAGATCCCGAGATTTCCCTTGgtacattttg ... ttttactcagATATATTCAAGCCAGACCCCAATTTCCTGGAGAATGAGAAGCGTTATGAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gattgaggttatatgtcattgtgatttctgtattttccattttgtttttactcagATATATTCAAGCCAGACCCCAATTTCCTGGAGAATGAGAAGCGTTATGAAGAGTTGAAGAAATCAATGCTGGGTGAGGAATCTGAAGATGATGAGGAAGG
 atttgat  putative branch site (score: 5)
                                ttttccattttgtttt  putative PPT
                                      attttgtttttact  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtacattttgtactgaagtttgtatctgtttctaatttgattgaggttatatgtcattgtgatttctgtattttccattttgtttttactcagATATATTCAAGCCAGACCCCAATTTCCTGGAGAATGAGAAGCGTTATGAAGAGTTGAAGAAATCAATGCTGGGTGAGGAATCTGAAGATGATGAGGAAGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGATG