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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgttattattaaatgacactgcacaggttttctattcagctatcctggattagcatgcactgtatcactagatgatctaatatgtatctgtttcattgtatatgcagATTCCTGTTGATGTGGACCGTACAGTGAAAGACTTTTATAAGTTCCTCAGGAAACATGCATCAATCCCATTCCAGCTCCAGAAACTAGCCTCAACTACTA

Basic information

species Glycine max
transcript GLYMA11G20630.1
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|58016564|gb|CX703306.1|CX703306
EST:     GATTCCCCACTCTTCTCTTCTTCCCAGCAGGAAACAAGAGTTCTGACCCT                         ATTCCTGTTGATGTGGACCGTACAGTGAAAGACTTTTATAAGTTCCTCAGG
genomic: GATTCCCCACTCTTCTCTTCTTCCCAGCAGGAAACAAGAGTTCTGACCCTgtacgttatt ... gtatatgcagATTCCTGTTGATGTGGACCGTACAGTGAAAGACTTTTATAAGTTCCTCAGG
EST: gi|298187911|gb|HO031868.1|HO031868
EST:     GATTCCCCACTCTTCTCTTCTTCCCAGCAGGAAACAAGAGTTCTGACCCT                         ATTCCTGTTGATGTGGACCGTACAGTGAAAGACTTTTATAAGTTCCTCAGG
genomic: GATTCCCCACTCTTCTCTTCTTCCCAGCAGGAAACAAGAGTTCTGACCCTgtacgttatt ... gtatatgcagATTCCTGTTGATGTGGACCGTACAGTGAAAGACTTTTATAAGTTCCTCAGG
EST: gi|7590689|gb|AW706508.1|AW706508
EST:     GATTCCCCACTCTTCTCTTCTTCCCAGCAGGAAACAAGAGTTCTGACCCT                         ATTCCTGTTGATGTGGACCGTACAGTGAAAGACTTTTATAAGTTCCTCAGG
genomic: GATTCCCCACTCTTCTCTTCTTCCCAGCAGGAAACAAGAGTTCTGACCCTgtacgttatt ... gtatatgcagATTCCTGTTGATGTGGACCGTACAGTGAAAGACTTTTATAAGTTCCTCAGG
EST: gi|22928956|gb|BU546095.1|BU546095
EST:     GATTCCCCACTCTTCTCTTCTTCCCAGCAGGAAACAAGAGTTCTGACCCT                         ATTCCTGTTGATGTGGACCGTACAGTGAAAGACTTTTATAAGTTCCTCAGG
genomic: GATTCCCCACTCTTCTCTTCTTCCCAGCAGGAAACAAGAGTTCTGACCCTgtacgttatt ... gtatatgcagATTCCTGTTGATGTGGACCGTACAGTGAAAGACTTTTATAAGTTCCTCAGG
EST: gi|298173403|gb|HO016739.1|HO016739
EST:     GATTCCCCACTCTTCTCTTCTTCCCAGCAGGAAACAAGAGTTCTGACCCT                         ATTCCTGTTGATGTGGACCGTACAGTGAAAGACTTTTATAAGTTCCTCAGG
genomic: GATTCCCCACTCTTCTCTTCTTCCCAGCAGGAAACAAGAGTTCTGACCCTgtacgttatt ... gtatatgcagATTCCTGTTGATGTGGACCGTACAGTGAAAGACTTTTATAAGTTCCTCAGG
EST: gi|151403024|gb|EV272837.1|EV272837
EST:     GATTCCCCACTCTTCTCTTCTTCCCAGCAGGAAACAAGAGTTCTGACCCT                         ATTCCTGTTGATGTGGACCGTACAGTGAAAGACTTTTATAAGTTCCTCAGG
genomic: GATTCCCCACTCTTCTCTTCTTCCCAGCAGGAAACAAGAGTTCTGACCCTgtacgttatt ... gtatatgcagATTCCTGTTGATGTGGACCGTACAGTGAAAGACTTTTATAAGTTCCTCAGG
EST: gi|6567046|gb|AW234673.1|AW234673
EST:     GATTCCCCACTCTTCTCTTCTTCCCAGCAGGAAACAAGAGTTCTGACCCT                         ATTCCTGTTGATGTGGACCGTACAGTGAAAGACTTTTATAAGTTCCTCAGG
genomic: GATTCCCCACTCTTCTCTTCTTCCCAGCAGGAAACAAGAGTTCTGACCCTgtacgttatt ... gtatatgcagATTCCTGTTGATGTGGACCGTACAGTGAAAGACTTTTATAAGTTCCTCAGG
EST: gi|31310791|gb|CD395994.1|CD395994
EST:     GATTCCCCACTCTTCTCTTCTTCCCAGCAGGAAACAAGAGTTCTGACCCT                         ATTCCTGTTGATGTGGACCGTACAGTGAAAGACTTTTATAAGTTCCTCAGG
genomic: GATTCCCCACTCTTCTCTTCTTCCCAGCAGGAAACAAGAGTTCTGACCCTgtacgttatt ... gtatatgcagATTCCTGTTGATGTGGACCGTACAGTGAAAGACTTTTATAAGTTCCTCAGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcatgcactgtatcactagatgatctaatatgtatctgtttcattgtatatgcagATTCCTGTTGATGTGGACCGTACAGTGAAAGACTTTTATAAGTTCCTCAGGAAACATGCATCAATCCCATTCCAGCTCCAGAAACTAGCCTCAACTACTA
                      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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtacgttattattaaatgacactgcacaggttttctattcagctatcctggattagcatgcactgtatcactagatgatctaatatgtatctgtttcattgtatatgcagATTCCTGTTGATGTGGACCGTACAGTGAAAGACTTTTATAAGTTCCTCAGGAAACATGCATCAATCCCATTCCAGCTCCAGAAACTAGCCTCAACTACTA

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