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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgcgtgattattaaatgacagcgcacagtttttctattcagctatcctggattagcatgcactgtatcactagatgatctaatatgtatctgtttcattgtatatgcagATTCCTGTTGATGTGGATCATACAGTGAAAGCCTTTTATAAGTTCCTCAGGAAACATGCATCAATCCCATTCCAGCTCCAGAAACCAACCTCAACTGCTA

Basic information

species Glycine max
transcript GLYMA12G07260.1
intron # 11
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|151396998|gb|EV266871.1|EV266871
EST:     GATTCCCCACCCTTCTCTTCTTCCCAGCAGGCAACAAGAGTTCTGACCCT                         ATTCCTGTTGATGTGGATCATACAGTGAAAGCCTTTTATAAGTTCCTCAGG
genomic: GATTCCCCACCCTTCTCTTCTTCCCAGCAGGCAACAAGAGTTCTGACCCTgtgcgtgatt ... gtatatgcagATTCCTGTTGATGTGGATCATACAGTGAAAGCCTTTTATAAGTTCCTCAGG
EST: gi|31457199|gb|CD399227.1|CD399227
EST:     GATTCCCCACCCTTCTCTTCTTCCCAGCAGGCAACAAGAGTTCTGACCCT                         ATTCCTGTTGATGTGGATCATACAGTGAAAGCCTTTTATAAGTTCCTCAGG
genomic: GATTCCCCACCCTTCTCTTCTTCCCAGCAGGCAACAAGAGTTCTGACCCTgtgcgtgatt ... gtatatgcagATTCCTGTTGATGTGGATCATACAGTGAAAGCCTTTTATAAGTTCCTCAGG
EST: gi|10255319|gb|BE823085.1|BE823085
EST:     CAAGAGTTCTGACCCT                         ATTCCTGTTGATGTGGATCATACAGTGAAAGCCTTTTATAAGTTCCTCAGG
genomic: CAAGAGTTCTGACCCTgtgcgtgatt ... gtatatgcagATTCCTGTTGATGTGGATCATACAGTGAAAGCCTTTTATAAGTTCCTCAGG
EST: gi|15814196|gb|BI786471.1|BI786471
EST:     GATTCCCCACCCTTCTCTTCTTCCCAGCAGGCAACAAGAGTTCTGACCCT                         ATTCCTGTTGATGTGGATCATACAGTGAAAGCCTTTTATAAGTTCCTCAGG
genomic: GATTCCCCACCCTTCTCTTCTTCCCAGCAGGCAACAAGAGTTCTGACCCTgtgcgtgatt ... gtatatgcagATTCCTGTTGATGTGGATCATACAGTGAAAGCCTTTTATAAGTTCCTCAGG
EST: gi|15814100|gb|BI786375.1|BI786375
EST:     GATTCCCCACCCTTCTCTTCTTCCCAGCAGGCAACAAGAGTTCTGACCCT                         ATTCCTGTTGATGTGGATCATACAGTGAAAGCCTTTTATAAGTTCCTCAGG
genomic: GATTCCCCACCCTTCTCTTCTTCCCAGCAGGCAACAAGAGTTCTGACCCTgtgcgtgatt ... gtatatgcagATTCCTGTTGATGTGGATCATACAGTGAAAGCCTTTTATAAGTTCCTCAGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcatgcactgtatcactagatgatctaatatgtatctgtttcattgtatatgcagATTCCTGTTGATGTGGATCATACAGTGAAAGCCTTTTATAAGTTCCTCAGGAAACATGCATCAATCCCATTCCAGCTCCAGAAACCAACCTCAACTGCTA
                      atctaat  putative branch site (score: 3)
                         taatatgtat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgcgtgattattaaatgacagcgcacagtttttctattcagctatcctggattagcatgcactgtatcactagatgatctaatatgtatctgtttcattgtatatgcagATTCCTGTTGATGTGGATCATACAGTGAAAGCCTTTTATAAGTTCCTCAGGAAACATGCATCAATCCCATTCCAGCTCCAGAAACCAACCTCAACTGCTA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC