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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattacgttaatttcttttaaatttttttttttagtttctagatgccaacaggtaaaaagaaagattcatatttagatcctaattagtttgttgtccccgtttcctcagTCTGGGCTGCAAAGCTATATTTCTTTTGGGAGGAAAATCCAGAGAGGATACTCCCTTGGCAATGTTCCTTCGAAGCGGTGATGCTGTACTTATGGCTGGA

Basic information

species Glycine max
transcript GLYMA11G37040.1
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|298172230|gb|HO021822.1|HO021822
EST:     CACCTTGATGACATGGAAGCAGATTGGAGCAAGCCTATTGTTAGTCTAAG                         TCTGGGCTGCAAAGCTATATTTCTTTTGGGAGGAAAATCCAGAGAGGATAC
genomic: CACCTTGATGACATGGAAGCAGATTGGAGCAAGCCTATTGTTAGTCTAAGgtattacgtt ... gtttcctcagTCTGGGCTGCAAAGCTATATTTCTTTTGGGAGGAAAATCCAGAGAGGATAC
EST: gi|6071440|gb|AW100827.1|AW100827
EST:     CACCTTGATGACATGGAAGCAGATTGGAGCAAGCCTATTGTTAGTCTAAG                         TCTGGGCTGCAAAGCTATATTTCTTTTGGGAGGAAAATCCAGAGAGGATAC
genomic: CACCTTGATGACATGGAAGCAGATTGGAGCAAGCCTATTGTTAGTCTAAGgtattacgtt ... gtttcctcagTCTGGGCTGCAAAGCTATATTTCTTTTGGGAGGAAAATCCAGAGAGGATAC
EST: gi|209717977|gb|BW671806.1|BW671806
EST:     CACCTTGATGACATGGAAGCAGATTGGAGCAAGCCTATTGTTAGTCTAAG                         TCTGGGCTGCAAAGCTATATTTCTTTTGGGAGGAAAATCCAGAGAGGATAC
genomic: CACCTTGATGACATGGAAGCAGATTGGAGCAAGCCTATTGTTAGTCTAAGgtattacgtt ... gtttcctcagTCTGGGCTGCAAAGCTATATTTCTTTTGGGAGGAAAATCCAGAGAGGATAC
EST: gi|209712172|gb|BW681378.1|BW681378
EST:     CACCTTGATGACATGGAAGCAGATTGGAGCAAGCCTATTGTTAGTCTAAG                         TCTGGGCTGCAAAGCTATATTTCTTTTGGGAGGAAAATCCAGAGAGGATAC
genomic: CACCTTGATGACATGGAAGCAGATTGGAGCAAGCCTATTGTTAGTCTAAGgtattacgtt ... gtttcctcagTCTGGGCTGCAAAGCTATATTTCTTTTGGGAGGAAAATCCAGAGAGGATAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaaaagaaagattcatatttagatcctaattagtttgttgtccccgtttcctcagTCTGGGCTGCAAAGCTATATTTCTTTTGGGAGGAAAATCCAGAGAGGATACTCCCTTGGCAATGTTCCTTCGAAGCGGTGATGCTGTACTTATGGCTGGA
                       tcctaat  putative branch site (score: 2)
                                     ttgtccccgtttcctc  putative PPT
      aaagattcatattta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtattacgttaatttcttttaaatttttttttttagtttctagatgccaacaggtaaaaagaaagattcatatttagatcctaattagtttgttgtccccgtttcctcagTCTGGGCTGCAAAGCTATATTTCTTTTGGGAGGAAAATCCAGAGAGGATACTCCCTTGGCAATGTTCCTTCGAAGCGGTGATGCTGTACTTATGGCTGGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA