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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tcacttaaggtttcaaagatttgtgtaagaataattttttctttaacgattgtttataataaacaaggtttcttatattgacattctactacttttgcagCATTGATGTGATTCAGTAGTCAGAAATCTAAGGTACTCCCCAAGAGGGCATTTTTCAGCTTTTCTTGCAATGGATTTGGACCGGACAATAGGGACTGTGG

Basic information

species Glycine max
transcript GLYMA02G12930.1
intron # 6
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|37994792|gb|CF806381.1|CF806381
EST:     GTGAGGACAACATAAAAGCTGAAGAAGCCAAACCTTCTGAGCCTGAG                         CATTGATGTGATTCAGTAGTCAGAAATCTAAGGTACTCCCC
genomic: GTGAGGACAACATAAAAGCTGAAGAAGCCAAACCTTCTGAGCCTGAGgtgtgtgcat ... acttttgcagCATTGATGTGATTCAGTAGTCAGAAATCTAAGGTACTCCCC
EST: gi|207817655|gb|GD791016.1|GD791016
EST:     GTGAGGACAACATAAAAGCTGAAGAAGCCAAACCTTCTGAGCCTGAG                         CATTGATGTGATTCAGTAGTCAGAAATCTAAGGTACTCCCCAAGAGGGCAT
genomic: GTGAGGACAACATAAAAGCTGAAGAAGCCAAACCTTCTGAGCCTGAGgtgtgtgcat ... acttttgcagCATTGATGTGATTCAGTAGTCAGAAATCTAAGGTACTCCCCAAGAGGGCAT
EST: gi|207727273|gb|GD700885.1|GD700885
EST:     GTGAGGACAACATAAAAGCTGAAGAAGCCAAACCTTCTGAGCCTGAG                         CATTGATGTGATTCAGTAGTCAGAAATCTAAGGTACTCCCCAAGAGGGCAT
genomic: GTGAGGACAACATAAAAGCTGAAGAAGCCAAACCTTCTGAGCCTGAGgtgtgtgcat ... acttttgcagCATTGATGTGATTCAGTAGTCAGAAATCTAAGGTACTCCCCAAGAGGGCAT
EST: gi|12689676|gb|BG156012.1|BG156012
EST:     GTGAGGACAACATAAAAGCTGAAGAAGCCAAACCTTCTGAGCCTGAG                         CATTGATGTGATTTAATAGTTAGAAATCTAAGGTACTCCCCAAGAGGGCAT
genomic: GTGAGGACAACATAAAAGCTGAAGAAGCCAAACCTTCTGAGCCTGAGgtgtgtgcat ... acttttgcagCATTGATGTGATTCAGTAGTCAGAAATCTAAGGTACTCCCCAAGAGGGCAT
EST: gi|18690824|gb|BM519672.1|BM519672
EST:     GTGAGGACAACATAAAAGCTGAAGAAGCCAAACCTTCTGAGCCTGAG                         CATTGATGTGATTCAGTAGTCAGAAATCTAAGGTACTCCCCAAGAGGGCAT
genomic: GTGAGGACAACATAAAAGCTGAAGAAGCCAAACCTTCTGAGCCTGAGgtgtgtgcat ... acttttgcagCATTGATGTGATTCAGTAGTCAGAAATCTAAGGTACTCCCCAAGAGGGCAT
EST: gi|7284525|gb|AW597114.1|AW597114
EST:     GTGAGGACAACATAAAAGCTGAAGAAGCCAAACCTTCTGAGCCTGAG                         CATTGATGTGATTCAG
genomic: GTGAGGACAACATAAAAGCTGAAGAAGCCAAACCTTCTGAGCCTGAGgtgtgtgcat ... acttttgcagCATTGATGTGATTCAG
EST: gi|31468373|gb|CD410401.1|CD410401
EST:     GTGAGGACAACATAAAAGCTGAAGAAGCCAAACCTTCTGAGCCTGAG                         CATTGATGTGATTCAGTAGTCAGAAATCTAAGGTACTCCCCAAGAGGGCAT
genomic: GTGAGGACAACATAAAAGCTGAAGAAGCCAAACCTTCTGAGCCTGAGgtgtgtgcat ... acttttgcagCATTGATGTGATTCAGTAGTCAGAAATCTAAGGTACTCCCCAAGAGGGCAT
EST: gi|193448250|gb|FK415873.1|FK415873
EST:     GTGAGGACAACATAAAAGCTGAAGAAGCCAAACCTTCGGAGCCTGAG                         CATTGATGTGATTCAGTAGTCAGAAATCTAAGGTA
genomic: GTGAGGACAACATAAAAGCTGAAGAAGCCAAACCTTCTGAGCCTGAGgtgtgtgcat ... acttttgcagCATTGATGTGATTCAGTAGTCAGAAATCTAAGGTA
EST: gi|7692312|gb|AW760421.1|AW760421
EST:     GTGAGGACAACATAAAANCTGAAGAAGCCAAACCTTCTGAGCCTGAN                         CATTGATGTGATTCAGTAGTCAGAAATCTAAAGTACTCCCCAAG
genomic: GTGAGGACAACATAAAAGCTGAAGAAGCCAAACCTTCTGAGCCTGAGgtgtgtgcat ... acttttgcagCATTGATGTGATTCAGTAGTCAGAAATCTAAGGTACTCCCCAAG
EST: gi|57574121|gb|CX547096.1|CX547096
EST:     GTGAGGACAACATAAAAGCTGAAGAAGCCAAACCTTCTGAGCCTGAG                         CATTGATGTGATTCAGTAGTCAGAAATCTAAGGTACTCCCCAAGAGGGCAT
genomic: GTGAGGACAACATAAAAGCTGAAGAAGCCAAACCTTCTGAGCCTGAGgtgtgtgcat ... acttttgcagCATTGATGTGATTCAGTAGTCAGAAATCTAAGGTACTCCCCAAGAGGGCAT
EST: gi|208072943|gb|GD868526.1|GD868526
EST:     GTGAGGACAACATAAAAGCTGAAGAAGCCAAACCTTCTGAGCCTGAG                         CATTGATGTGATTCAGTAGTCAGAAATCTAAGGTACTCCCCAAGAGGGCAT
genomic: GTGAGGACAACATAAAAGCTGAAGAAGCCAAACCTTCTGAGCCTGAGgtgtgtgcat ... acttttgcagCATTGATGTGATTCAGTAGTCAGAAATCTAAGGTACTCCCCAAGAGGGCAT
EST: gi|208227133|gb|GE022372.1|GE022372
EST:     GTGAGGACAACATAAAAGCTGAAGAAGCCAAACCTTCTGAGCCTGAG                         CATTGATGTGATTCAGTAGTCAGAAATCTAAGGTACTCCCCAAGAGGGCAT
genomic: GTGAGGACAACATAAAAGCTGAAGAAGCCAAACCTTCTGAGCCTGAGgtgtgtgcat ... acttttgcagCATTGATGTGATTCAGTAGTCAGAAATCTAAGGTACTCCCCAAGAGGGCAT
EST: gi|38193306|gb|CF922512.1|CF922512
EST:     GTGAGGACAACATAAAAGCTGAAGAAGCCAAACCTTCTGAGCCTGAG                         CATTGATGTGATTCAGTAGTCAGAAATCTAAG
genomic: GTGAGGACAACATAAAAGCTGAAGAAGCCAAACCTTCTGAGCCTGAGgtgtgtgcat ... acttttgcagCATTGATGTGATTCAGTAGTCAGAAATCTAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acgattgtttataataaacaaggtttcttatattgacattctactacttttgcagCATTGATGTGATTCAGTAGTCAGAAATCTAAGGTACTCCCCAAGAGGGCATTTTTCAGCTTTTCTTGCAATGGATTTGGACCGGACAATAGGGACTGTGG
                              tattgac  putative branch site (score: 2)
                                           ctactttt  putative PPT
       tttataataaacaagg  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tcacttaaggtttcaaagatttgtgtaagaataattttttctttaacgattgtttataataaacaaggtttcttatattgacattctactacttttgcagCATTGATGTGATTCAGTAGTCAGAAATCTAAGGTACTCCCCAAGAGGGCATTTTTCAGCTTTTCTTGCAATGGATTTGGACCGGACAATAGGGACTGTGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT