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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gcattgccactttccatgtactcacccaagcaagtagatgtcactgtcagttttgatctggtgtttctgtgttgtgagattgtgatacttttttgggtagGTTATGCGACTCTTGGCTAATCATCCACAGTTTGGGATTGCACTGATGACTGCTGATAGGAAAGCTGGGCAGCCAATCTCTTCTGTATTCCCACATTTGA

Basic information

species Glycine max
transcript GLYMA07G29630.1
intron # 3
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|207829325|gb|GD798175.1|GD798175
EST:     ATGGGGTTCGTGTTGGTGTTCTTGGAGCTAGTGGCTACACTGGTTCTGAG                         GTTATGCGACTCTTG
genomic: ATGGGGTTCGTGTTGGTGTTCTTGGAGCTAGTGGCTACACTGGTTCTGAGgtaagctaca ... ttttgggtagGTTATGCGACTCTTG
EST: gi|23727378|gb|BU761716.1|BU761716
EST:     ATGGGGTTCGTGTTGGTGTTCTTGGAGCTAGTGGCTACACTGGTTCTGAG                         GTTATGCGACTCTTGGCTAATCATCCACAGTTTGGGATTGCACTGATGACT
genomic: ATGGGGTTCGTGTTGGTGTTCTTGGAGCTAGTGGCTACACTGGTTCTGAGgtaagctaca ... ttttgggtagGTTATGCGACTCTTGGCTAATCATCCACAGTTTGGGATTGCACTGATGACT
EST: gi|16348300|gb|BI973895.1|BI973895
EST:     ATGGGGTTCGTGTTGGTGTTCTTGGAGCTAGTGGCTACACTGGTTCTGAG                         GTTATGCGACTCTTGGCTAATCATCCACAGTTTGGGATTGCACTGATGACT
genomic: ATGGGGTTCGTGTTGGTGTTCTTGGAGCTAGTGGCTACACTGGTTCTGAGgtaagctaca ... ttttgggtagGTTATGCGACTCTTGGCTAATCATCCACAGTTTGGGATTGCACTGATGACT
EST: gi|192294866|gb|FG987555.1|FG987555
EST:     ATGGGGTTCGTGTCGGTGTTCTTGGAGCTAGTGGCTACACTGGTTCTGAG                         GTTATGCGACTCTTGGCTAATCATCCACAGTTTGGGATTGCACTGATGACT
genomic: ATGGGGTTCGTGTTGGTGTTCTTGGAGCTAGTGGCTACACTGGTTCTGAGgtaagctaca ... ttttgggtagGTTATGCGACTCTTGGCTAATCATCCACAGTTTGGGATTGCACTGATGACT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtcagttttgatctggtgtttctgtgttgtgagattgtgatacttttttgggtagGTTATGCGACTCTTGGCTAATCATCCACAGTTTGGGATTGCACTGATGACTGCTGATAGGAAAGCTGGGCAGCCAATCTCTTCTGTATTCCCACATTTGA
     ttttgat  putative branch site (score: 4)
                                        tactttttt  putative PPT
                                       atactttttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gcattgccactttccatgtactcacccaagcaagtagatgtcactgtcagttttgatctggtgtttctgtgttgtgagattgtgatacttttttgggtagGTTATGCGACTCTTGGCTAATCATCCACAGTTTGGGATTGCACTGATGACTGCTGATAGGAAAGCTGGGCAGCCAATCTCTTCTGTATTCCCACATTTGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCTG
-cattgcc
- - - - - - -ccatgta
- - - - - - - - - - ctcaccc
- - - - - - - - - - - - - - -gcaagta
- - - - - - - - - - - - - - - - - - - tgtcact
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgttgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gattgtg