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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...agagcatttaacatccttatttcctttgttctttctttttttggaatttatattatttagatctaagactctgatgaacaaattttttaactttaaccagTGTGCCACTGGGGCAGCGATTAAGGAACAACGAATCATGTCAAAAATATTCAGAAGTATGTTTGAAGCTGTGCCACGAGATGAACATCAAGGCAATTGAT

Basic information

species Glycine max
transcript GLYMA07G18210.2
intron # 4
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|31468536|gb|CD410564.1|CD410564
EST:     ATATTTCTCAGTGCTCCTCCTGTCAATGAGGCACAAATTTATGGAACCAG                         TGTGCCACT-GGGCAGCGATTAAGGAACAACGAATCATGTCAAAAATATTC
genomic: ATATTTCTCAGTGCTCCTCCTGTCAATGAGGCACAAATTTATGGAACCAGgttttgactt ... ctttaaccagTGTGCCACTGGGGCAGCGATTAAGGAACAACGAATCATGTCAAAAATATTC
EST: gi|193644885|gb|FK588747.1|FK588747
EST:     CTCCTCCTGTCAATGAGGCACAAATTTATGGAACCAG                         TGTGCCACTGGGGCAGCGATTAAGGAACAACGAATCATGTCAAAAATATTC
genomic: CTCCTCCTGTCAATGAGGCACAAATTTATGGAACCAGgttttgactt ... ctttaaccagTGTGCCACTGGGGCAGCGATTAAGGAACAACGAATCATGTCAAAAATATTC
EST: gi|58022084|gb|CX708825.1|CX708825
EST:     ATATTTNTCAGTGCTCCTCCTGTCAATGAGCCACAAATTTATGGAACCAG                         TGTGCCACTGGGGCAGCGATTAAGGAACAACGAATCATGTCAAAAATATTC
genomic: ATATTTCTCAGTGCTCCTCCTGTCAATGAGGCACAAATTTATGGAACCAGgttttgactt ... ctttaaccagTGTGCCACTGGGGCAGCGATTAAGGAACAACGAATCATGTCAAAAATATTC
EST: gi|192327729|gb|FK022036.1|FK022036
EST:     ATATTTCTCAGTGCTCCTCCTGTCAATGAGGCACAAATTTATGGAACCAG                         TGTGCCACTGGGGCAGCGATTAAGGAACAACGAATCATGTCAAAAATATTC
genomic: ATATTTCTCAGTGCTCCTCCTGTCAATGAGGCACAAATTTATGGAACCAGgttttgactt ... ctttaaccagTGTGCCACTGGGGCAGCGATTAAGGAACAACGAATCATGTCAAAAATATTC
EST: gi|208031306|gb|GD831640.1|GD831640
EST:     TCAGTGCTCCTCCTGTCAATGAGGCACAAATTTATGGAACCAG                         TGTGCCACTGGGGCAGCGATTAAGGAACAACGAATCATGTCAAAAATATTC
genomic: TCAGTGCTCCTCCTGTCAATGAGGCACAAATTTATGGAACCAGgttttgactt ... ctttaaccagTGTGCCACTGGGGCAGCGATTAAGGAACAACGAATCATGTCAAAAATATTC
EST: gi|15812713|gb|BI784988.1|BI784988
EST:     ATATTTCTCAGTGCTCCTCCTGTCAATGAGGCACAAATTTATGGAACCAG                         TGTGCCACTGGGGCAGCGATTAAGGAACAACGAATCATGTCAAAAATATTC
genomic: ATATTTCTCAGTGCTCCTCCTGTCAATGAGGCACAAATTTATGGAACCAGgttttgactt ... ctttaaccagTGTGCCACTGGGGCAGCGATTAAGGAACAACGAATCATGTCAAAAATATTC
EST: gi|8669315|gb|BE190422.1|BE190422
EST:     ATATTTCTCAGTGCTCCTCCTGTCAATGAGGCACAAATTTATGGAACCAG                         TGTGCCACTGGGGCAGCGATTAAGGAACAACGAATCATGTCAAAAATATTC
genomic: ATATTTCTCAGTGCTCCTCCTGTCAATGAGGCACAAATTTATGGAACCAGgttttgactt ... ctttaaccagTGTGCCACTGGGGCAGCGATTAAGGAACAACGAATCATGTCAAAAATATTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atttatattatttagatctaagactctgatgaacaaattttttaactttaaccagTGTGCCACTGGGGCAGCGATTAAGGAACAACGAATCATGTCAAAAATATTCAGAAGTATGTTTGAAGCTGTGCCACGAGATGAACATCAAGGCAATTGAT
                                       ttttaac  putative branch site (score: 2)
 atgaacaaatttttta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
agagcatttaacatccttatttcctttgttctttctttttttggaatttatattatttagatctaagactctgatgaacaaattttttaactttaaccagTGTGCCACTGGGGCAGCGATTAAGGAACAACGAATCATGTCAAAAATATTCAGAAGTATGTTTGAAGCTGTGCCACGAGATGAACATCAAGGCAATTGAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG