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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...acaaattccccctaccaaactttgcaaatctgagcatccctaatccctaaaactactgaaaagacgaattttaattttctttcttggttgagtatggcagGTATTGCAACGGAACATTTTCTCTGTACTAAAGAAAACCAAGCATGTGTGACCGAGGAATAGCACGCTAGGTCTTCTAACTGCTTTCCCCAATAAAGTCG

Basic information

species Glycine max
transcript GLYMA08G05260.1
intron # 8
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|22929460|gb|BU546599.1|BU546599
EST:     AATGAAACCCTTCTATATGCTTCAGATGCTGCTGAGAAGTTTAGCGACAG                         GTATTGCAACGGAACATTTTCTCTGTACTAAAGAAAACCAAGCATGTGTGA
genomic: AATGAAACCCTTCTATATGCTTCAGATGCTGCTGAGAAGTTTAGCGACAGgtatgctatt ... agtatggcagGTATTGCAACGGAACATTTTCTCTGTACTAAAGAAAACCAAGCATGTGTGA
EST: gi|207762253|gb|GD733352.1|GD733352
EST:     AATGAAACCCTTCTATATGCTTCAGATGCTGCTGAGAAGTTTAGCGACAG                         GTATTGCAACGGAACATTTTCTCTGTACTAAAGAAAACCAAGCATGTGTGA
genomic: AATGAAACCCTTCTATATGCTTCAGATGCTGCTGAGAAGTTTAGCGACAGgtatgctatt ... agtatggcagGTATTGCAACGGAACATTTTCTCTGTACTAAAGAAAACCAAGCATGTGTGA
EST: gi|207818340|gb|GD792373.1|GD792373
EST:     TGAAACCCTTCTATATGCTTACAAGATGCTGCTGAGAAGTTTAGCGACAG                         GTATTGCAACGG
genomic: TGAAACCCTTCTATATGCTT-CA-GATGCTGCTGAGAAGTTTAGCGACAGgtatgctatt ... agtatggcagGTATTGCAACGG
EST: gi|22927616|gb|BU544755.1|BU544755
EST:     AATGAAACCCTTCTATATGCTTCAGATGCTGCTGAGAAGTTTAGCGACAG                         GTATTGCAACGGAACATTTTCTCTGTACTAAAGAAAACCAAGCATGTGTGA
genomic: AATGAAACCCTTCTATATGCTTCAGATGCTGCTGAGAAGTTTAGCGACAGgtatgctatt ... agtatggcagGTATTGCAACGGAACATTTTCTCTGTACTAAAGAAAACCAAGCATGTGTGA
EST: gi|193372878|gb|FK333826.1|FK333826
EST:     AGAAGTTTAGCGACAG                         GTATTGCAACGGAACATTTTCTCTGTACTAAAGAAAACCAAGCATGTGTGA
genomic: AGAAGTTTAGCGACAGgtatgctatt ... agtatggcagGTATTGCAACGGAACATTTTCTCTGTACTAAAGAAAACCAAGCATGTGTGA
EST: gi|207749940|gb|GD718656.1|GD718656
EST:     AATGAAACCCTTCTATATGCTTCAGATGCTGCTGAGAAGTTTAGCGACAG                         GTATTGCAACGG
genomic: AATGAAACCCTTCTATATGCTTCAGATGCTGCTGAGAAGTTTAGCGACAGgtatgctatt ... agtatggcagGTATTGCAACGG
EST: gi|208124773|gb|GD924219.1|GD924219
EST:     AATGAAACCCTTCTATATGCTTCAGATGCTGCTGAGAAGTTTAGCGACAG                         GTATTGCAACGGAAC
genomic: AATGAAACCCTTCTATATGCTTCAGATGCTGCTGAGAAGTTTAGCGACAGgtatgctatt ... agtatggcagGTATTGCAACGGAAC
EST: gi|193689186|gb|FK631397.1|FK631397
EST:     GATGCTGCTTGTAGTAAGTTTTAGCGACAG                         GTATTGCAACGGAACATTTTCTCTGTACTAAAGAAAACCAAGCATGTGTGA
genomic: GATGCTGC-TG-AG-AAG-TTTAGCGACAGgtatgctatt ... agtatggcagGTATTGCAACGGAACATTTTCTCTGTACTAAAGAAAACCAAGCATGTGTGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cctaaaactactgaaaagacgaattttaattttctttcttggttgagtatggcagGTATTGCAACGGAACATTTTCTCTGTACTAAAGAAAACCAAGCATGTGTGACCGAGGAATAGCACGCTAGGTCTTCTAACTGCTTTCCCCAATAAAGTCG
                       ttttaat  putative branch site (score: 3)
                     aattttaattttcttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
acaaattccccctaccaaactttgcaaatctgagcatccctaatccctaaaactactgaaaagacgaattttaattttctttcttggttgagtatggcagGTATTGCAACGGAACATTTTCTCTGTACTAAAGAAAACCAAGCATGTGTGACCGAGGAATAGCACGCTAGGTCTTCTAACTGCTTTCCCCAATAAAGTCG

- - -ttccccc
- - - - - - - ccaaact
- - - - - - - - - - - - - - - - -gcatccc
- - - - - - - - - - - - - - - - - - - - - - ccctaaa
- - - - - - - - - - - - - - - - - - - - - - - - - -actactg