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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttgcaacaacttgaaattcatgtagtttgagaaattcataatggtttaatagctttaacctcatgggagacgaaattaacttagcttttgttcatgacagTTTGCCCATATTTGGTATTGGTTCATCACTGAATAGATGGATGCATGAGTTAGCCACCATTGGCACTAATGCATTGTGTTGGCGGACAAGACAGGAACAG

Basic information

species Glycine max
transcript GLYMA04G09470.1
intron # 5
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|13125293|gb|BG315863.1|BG315863
EST:     GCTGTCATACCTGTCAAGTAATCCTCCACCAATTTTATTGTGTGTGATAG                         TTTGCCCATATTTGGTATTGGTTCATCACTGAATAGATGGATGCATGAGTT
genomic: GCTGTCATACCTGTCAAGTAATCCTCCACCAATTTTATTGTGTGTGATAGgtatgatctg ... ttcatgacagTTTGCCCATATTTGGTATTGGTTCATCACTGAATAGATGGATGCATGAGTT
EST: gi|13125367|gb|BG315937.1|BG315937
EST:     GCTGTCATACCTGTCAAGTAATCCTCCACCAATTTTATTGTGTGTGATAG                         TTTGCCCATATTTGGTATTGGTTCATCACTGAATAGATGGATGCATGAGTT
genomic: GCTGTCATACCTGTCAAGTAATCCTCCACCAATTTTATTGTGTGTGATAGgtatgatctg ... ttcatgacagTTTGCCCATATTTGGTATTGGTTCATCACTGAATAGATGGATGCATGAGTT
EST: gi|20813076|gb|BQ297554.1|BQ297554
EST:     GCTGTCATACCTGTCAAGTAATCCTCCACCAATTTTATTGTGTGTGATAG                         TTTGCCCATATTTGGTATTGGTTCATCACTGAATAGATGGATGCATGAGTT
genomic: GCTGTCATACCTGTCAAGTAATCCTCCACCAATTTTATTGTGTGTGATAGgtatgatctg ... ttcatgacagTTTGCCCATATTTGGTATTGGTTCATCACTGAATAGATGGATGCATGAGTT
EST: gi|17153212|gb|BM143145.1|BM143145
EST:     GCTGTCATACCTGTCAAGTAATCCTCCACCAATTTTATTGTGTGTGATAG                         TTTGCCCATATTTGGTATTGGTTCATCACTGAATAGATGGATGCATGAGTT
genomic: GCTGTCATACCTGTCAAGTAATCCTCCACCAATTTTATTGTGTGTGATAGgtatgatctg ... ttcatgacagTTTGCCCATATTTGGTATTGGTTCATCACTGAATAGATGGATGCATGAGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttaatagctttaacctcatgggagacgaaattaacttagcttttgttcatgacagTTTGCCCATATTTGGTATTGGTTCATCACTGAATAGATGGATGCATGAGTTAGCCACCATTGGCACTAATGCATTGTGTTGGCGGACAAGACAGGAACAG
                            aattaac  putative branch site (score: 2)
                                       cttttgttc  putative PPT
                           aaattaactta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttgcaacaacttgaaattcatgtagtttgagaaattcataatggtttaatagctttaacctcatgggagacgaaattaacttagcttttgttcatgacagTTTGCCCATATTTGGTATTGGTTCATCACTGAATAGATGGATGCATGAGTTAGCCACCATTGGCACTAATGCATTGTGTTGGCGGACAAGACAGGAACAG

- -caacaac
- - - - - - - - -tcatgta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - cctcatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaaattaa