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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gatgtttcctgctaattgcaggattttaggtagacatatggaagtttttctttaaattttttggtacttctttgattgaatgtggcatttaaatttgcagGACTAAAGCAGAGCCTCCAATCTACTATTTGCCTAACAAGCCCTTGGATGAAGATCCTACATTACTTGAGAAGCGCAAAGAAGAG

Basic information

species Glycine max
transcript GLYMA08G19640.1
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|207826860|gb|GD797423.1|GD797423
EST:     CTGTTTCTTCAGTGGAGTGAGCATCGTAAAAGACTAAGCAATTTTATAAG                         GACTAAAGCAGAGCCTCCAATCTACTAATTTGCCTAACAAGCCCTTGGATG
genomic: CTGTTTCTTCAGTGGAGTGAGCATCGTAAAAGACTAAGCAATTTTATAAGgtttgccctt ... aaatttgcagGACTAAAGCAGAGCCTCCAATCTACTA-TTTGCCTAACAAGCCCTTGGATG
EST: gi|193448419|gb|FK415958.1|FK415958
EST:     CTGTTTCTTCAGTGGAGTGAGCATCGTAAAAGACTAAGCAATTTTATAAG                         GACTAAAGCAGAGCCTCCAATCTACTATTTGCCTAACAAGCCCTTGGATGA
genomic: CTGTTTCTTCAGTGGAGTGAGCATCGTAAAAGACTAAGCAATTTTATAAGgtttgccctt ... aaatttgcagGACTAAAGCAGAGCCTCCAATCTACTATTTGCCTAACAAGCCCTTGGATGA
EST: gi|207806470|gb|GD777435.1|GD777435
EST:     CTGTTTCTTCAGTGGAGTGAGCATCGTAAAAGACTAAGCAATTTTATAAG                         GACTAAAGCAGAGCCTCCAATCTACTATTTGCCTAACAAGCCCTTGGATGA
genomic: CTGTTTCTTCAGTGGAGTGAGCATCGTAAAAGACTAAGCAATTTTATAAGgtttgccctt ... aaatttgcagGACTAAAGCAGAGCCTCCAATCTACTATTTGCCTAACAAGCCCTTGGATGA
EST: gi|208061566|gb|GD860148.1|GD860148
EST:     CTGTTTCTTCAGTGGAGTGAGCATCGTAAAAGACTAAGCAATTTTATAAG                         GACTAAAGCAGAGCCTCCAATCTACTATTTGCCTAACAAGCCCTTGGATGA
genomic: CTGTTTCTTCAGTGGAGTGAGCATCGTAAAAGACTAAGCAATTTTATAAGgtttgccctt ... aaatttgcagGACTAAAGCAGAGCCTCCAATCTACTATTTGCCTAACAAGCCCTTGGATGA
EST: gi|193672521|gb|FK618541.1|FK618541
EST:     CTGTTTCTTCAGTGGAGTGAGCATCGTAAAAGACTAAGCAATTTTATAAG                         GACTAAAGCAGAGCCTCCAATCTACTATTTGCCTAACAAGCCCTTGGATGA
genomic: CTGTTTCTTCAGTGGAGTGAGCATCGTAAAAGACTAAGCAATTTTATAAGgtttgccctt ... aaatttgcagGACTAAAGCAGAGCCTCCAATCTACTATTTGCCTAACAAGCCCTTGGATGA
EST: gi|207779627|gb|GD752501.1|GD752501
EST:     CTGTTTCTTCAGTGGAGTGAGCATCGTAAAAGACTAAGCAATTTTATAAG                         GACTAAAGCAGAGCCTCCAATCTACTATTTGCCTAACAAGCCCTTGGATGA
genomic: CTGTTTCTTCAGTGGAGTGAGCATCGTAAAAGACTAAGCAATTTTATAAGgtttgccctt ... aaatttgcagGACTAAAGCAGAGCCTCCAATCTACTATTTGCCTAACAAGCCCTTGGATGA
EST: gi|208239294|gb|GE041782.1|GE041782
EST:     TGGAGTGAGCATCGTAAAAGACTAAGCAATTTTATAAG                         GACTAAAGCAGAGCCTCCAATCTACTATTTGCCTAACAAGCCCTTGGATGA
genomic: TGGAGTGAGCATCGTAAAAGACTAAGCAATTTTATAAGgtttgccctt ... aaatttgcagGACTAAAGCAGAGCCTCCAATCTACTATTTGCCTAACAAGCCCTTGGATGA
EST: gi|208056996|gb|GD851245.1|GD851245
EST:     CTGTTTCTTCAGTGGAGTGAGCATCGTAAAAGACTAAGCAATTTTATAAG                         GACTAAAGCAGAGCCTCCAATCTACTATTTGCCTAACAAGCCCTTGGATGA
genomic: CTGTTTCTTCAGTGGAGTGAGCATCGTAAAAGACTAAGCAATTTTATAAGgtttgccctt ... aaatttgcagGACTAAAGCAGAGCCTCCAATCTACTATTTGCCTAACAAGCCCTTGGATGA
EST: gi|193427122|gb|FK392224.1|FK392224
EST:     CTGTTTCTTCAGTGGAGTGAGCATCGTAAAAGACTAAGCAATTTTATAAG                         GACTAAAGCAGAGCCTCCAATCTACTATTTGCCTAACAAGCCCTTGGA
genomic: CTGTTTCTTCAGTGGAGTGAGCATCGTAAAAGACTAAGCAATTTTATAAGgtttgccctt ... aaatttgcagGACTAAAGCAGAGCCTCCAATCTACTATTTGCCTAACAAGCCCTTGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttctttaaattttttggtacttctttgattgaatgtggcatttaaatttgcagGACTAAAGCAGAGCCTCCAATCTACTATTTGCCTAACAAGCCCTTGGATGAAGATCCTACATTACTTGAGAAGCGCAAAGAAGAG
                        ctttgat  putative branch site (score: 5)
     tttaaattttttggta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gatgtttcctgctaattgcaggattttaggtagacatatggaagtttttctttaaattttttggtacttctttgattgaatgtggcatttaaatttgcagGACTAAAGCAGAGCCTCCAATCTACTATTTGCCTAACAAGCCCTTGGATGAAGATCCTACATTACTTGAGAAGCGCAAAGAAGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- tgtttcc
- - - - - - - -ttgcagg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaatgtg