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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgggtatttcctgtaattgactttttaccttacattaattatatgcttgaaatttcctttaatttacactcaagcattcagATAGAAGAGGAGGATCCTCCATGTCTGCTTATAGGAAGGATGATTACAATTGGCGATATGACAGGGATGAACTTCCTGAGGACATAATTCAAGCTTCAAG

Basic information

species Glycine max
transcript GLYMA20G38790.4
intron # 6
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|7685581|gb|AW756229.1|AW756229
EST:     GGCCGTTCCTTCATCTCAGGCATCTG                         ATAGAAGAGGAGGATCCTCCATGTCTGCTTATAGGAAGGATGATTACAATT
genomic: GGCCGTTCCTTCATCTCAGGCATCTGgtgggtattt ... aagcattcagATAGAAGAGGAGGATCCTCCATGTCTGCTTATAGGAAGGATGATTACAATT
EST: gi|208136330|gb|GD933256.1|GD933256
EST:     GGCCGTTCCTTCATCTCAGGCATCTG                         ATAGAAGAGGAGGATCCTCCATGTCTGCTTATAGGAAGGATGATTACAATT
genomic: GGCCGTTCCTTCATCTCAGGCATCTGgtgggtattt ... aagcattcagATAGAAGAGGAGGATCCTCCATGTCTGCTTATAGGAAGGATGATTACAATT
EST: gi|58015683|gb|CX702425.1|CX702425
EST:     GGCCGTTCCTTCATCTCAGGCATCTG                         ATAGAAGAGGAGGATCCTCCATGTCTGCTTATAGGAAGGATGATTACAATT
genomic: GGCCGTTCCTTCATCTCAGGCATCTGgtgggtattt ... aagcattcagATAGAAGAGGAGGATCCTCCATGTCTGCTTATAGGAAGGATGATTACAATT
EST: gi|151405813|gb|EV275628.1|EV275628
EST:     GGCCGTTCCTTCATCTCAG-CATCTG                         ATAGAAGAGGAGGATCCTCCATGTCTGCTTATA
genomic: GGCCGTTCCTTCATCTCAGGCATCTGgtgggtattt ... aagcattcagATAGAAGAGGAGGATCCTCCATGTCTGCTTATA
EST: gi|192300294|gb|FG991426.1|FG991426
EST:     GGCCGTTCCTTCATCTCAGGCATCTG                         ATAGAAGAGGAGGATCCTCCATGTCTGCTTATAGGAAGGATGATTACAATT
genomic: GGCCGTTCCTTCATCTCAGGCATCTGgtgggtattt ... aagcattcagATAGAAGAGGAGGATCCTCCATGTCTGCTTATAGGAAGGATGATTACAATT
EST: gi|208321592|gb|GE120849.1|GE120849
EST:     GGCCGTTCCTTCATCTCAGGCATCTG                         ATAGAAGAGGAGGATCCTCCATGTCTGCTTATAGGAAGGATGATTACAATT
genomic: GGCCGTTCCTTCATCTCAGGCATCTGgtgggtattt ... aagcattcagATAGAAGAGGAGGATCCTCCATGTCTGCTTATAGGAAGGATGATTACAATT
EST: gi|31469024|gb|CD411052.1|CD411052
EST:     GGCCGTTCCTTCATCTCAGGCATCTG                         ATAGAAGAGGAGGATCCTCCATGTCTGCTTATAGGAAGGATGATTACAATT
genomic: GGCCGTTCCTTCATCTCAGGCATCTGgtgggtattt ... aagcattcagATAGAAGAGGAGGATCCTCCATGTCTGCTTATAGGAAGGATGATTACAATT
EST: gi|192318929|gb|FK011459.1|FK011459
EST:     GGCCGTTCCTTCATTTCAGGCATTTG                         ATAGAAGAGGAGGATCCTCCATGTCTGCTTATAGGAAGGATGATTACAATT
genomic: GGCCGTTCCTTCATCTCAGGCATCTGgtgggtattt ... aagcattcagATAGAAGAGGAGGATCCTCCATGTCTGCTTATAGGAAGGATGATTACAATT
EST: gi|209705186|gb|BW673726.1|BW673726
EST:     GGCCGTTCCTTCATCTCAGGCATCTG                         ATAGAAGAGGAGGATCCTCCATGTCTGCTTATAGGAAGGATGATTACAATT
genomic: GGCCGTTCCTTCATCTCAGGCATCTGgtgggtattt ... aagcattcagATAGAAGAGGAGGATCCTCCATGTCTGCTTATAGGAAGGATGATTACAATT
EST: gi|208323255|gb|GE120524.1|GE120524
EST:     GGCCGTTCCTTCATCTCAGGCATCTG                         ATAGAAGAGGAGGATCCTCCATGTCTGCTTATAGGTAAGGATTGATTACAA
genomic: GGCCGTTCCTTCATCTCAGGCATCTGgtgggtattt ... aagcattcagATAGAAGAGGAGGATCCTCCATGTCTGCTTATAGG-AAGGAT-GATTACAA
EST: gi|58018879|gb|CX705621.1|CX705621
EST:     GGCCGTTCCTTCATCTCAGGCATCTG                         ATAGAAGAGGAGGATCCTCCATGTCTGCTTATAGGAAGGATGATTACAATT
genomic: GGCCGTTCCTTCATCTCAGGCATCTGgtgggtattt ... aagcattcagATAGAAGAGGAGGATCCTCCATGTCTGCTTATAGGAAGGATGATTACAATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

accttacattaattatatgcttgaaatttcctttaatttacactcaagcattcagATAGAAGAGGAGGATCCTCCATGTCTGCTTATAGGAAGGATGATTACAATTGGCGATATGACAGGGATGAACTTCCTGAGGACATAATTCAAGCTTCAAG
       attaattatatgcttg  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgggtatttcctgtaattgactttttaccttacattaattatatgcttgaaatttcctttaatttacactcaagcattcagATAGAAGAGGAGGATCCTCCATGTCTGCTTATAGGAAGGATGATTACAATTGGCGATATGACAGGGATGAACTTCCTGAGGACATAATTCAAGCTTCAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAAGCT