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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ataatatacaatgatgatgtacacactggatatcaatagactttgctattatctatatgccaaatcacttaactttttcaccatttttatctgtttgcagCCTGTGTTAGAGTCCCATTCCAACCGAACAAGCATAACTTCTCTTGATGGAGATTATGCATCAAAGCCAGCTCTTGCAGCACCACGTGCATTAAGGAGTT

Basic information

species Glycine max
transcript GLYMA08G16670.3
intron # 9
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|192309657|gb|FK001005.1|FK001005
EST:     GCATAACCAGAGATGCTTTCCCTTGCATGTTTGATGGAAGCCGGACACCG                         CCTGTGTTAGAGTCCCATTCCAACCGAACAAGCATAACTTCTCTTGATGGA
genomic: GCATAACCAGAGATGCTTTCCCTTGCATGTTTGATGGAAGCCGGACACCGgtatatattc ... ctgtttgcagCCTGTGTTAGAGTCCCATTCCAACCGAACAAGCATAACTTCTCTTGATGGA
EST: gi|21637568|gb|BM107723.1|BM107723
EST:     GCATAACCAGAGATGCTTTCCCTTGCATGTTTGATGGAAGCCGGACACCG                         CCTGTGTTAGAGTCCCATTCCAACCGAACAAGCATAACTTCTCTTGATGGA
genomic: GCATAACCAGAGATGCTTTCCCTTGCATGTTTGATGGAAGCCGGACACCGgtatatattc ... ctgtttgcagCCTGTGTTAGAGTCCCATTCCAACCGAACAAGCATAACTTCTCTTGATGGA
EST: gi|57574083|gb|CX547058.1|CX547058
EST:     GCATAACCAGAGATGCTTTCCCTTGCATGTTTGATGGAAGCCGGACACCG                         CCTGTGTTAGAGTCCCATTCCAACCGAACAAGCATAACTTCTCTTGATGGA
genomic: GCATAACCAGAGATGCTTTCCCTTGCATGTTTGATGGAAGCCGGACACCGgtatatattc ... ctgtttgcagCCTGTGTTAGAGTCCCATTCCAACCGAACAAGCATAACTTCTCTTGATGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctattatctatatgccaaatcacttaactttttcaccatttttatctgtttgcagCCTGTGTTAGAGTCCCATTCCAACCGAACAAGCATAACTTCTCTTGATGGAGATTATGCATCAAAGCCAGCTCTTGCAGCACCACGTGCATTAAGGAGTT
                     acttaac  putative branch site (score: 3)
                                      tttttatct  putative PPT
                                     atttttatctgttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ataatatacaatgatgatgtacacactggatatcaatagactttgctattatctatatgccaaatcacttaactttttcaccatttttatctgtttgcagCCTGTGTTAGAGTCCCATTCCAACCGAACAAGCATAACTTCTCTTGATGGAGATTATGCATCAAAGCCAGCTCTTGCAGCACCACGTGCATTAAGGAGTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG