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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gcgagtcgacctagctctctgttttaacatgctatttagtcaagtattctagttcatatttattgtcaaaaggaaatgtctaatatggtttttttcccgacatttttgcaaaatcagTTACTATTTAGGGTCCGACTTACTGAGATCAGATTCTCTTGTTGGTGACATGATGCTGAAACAACTGTGGCATCACCAGGATGCCATTCTATGCTGTTCA

Basic information

species Glycine max
transcript GLYMA11G20520.1
intron # 15
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|151399697|gb|EV269568.1|EV269568
EST:     GGTTCTCCAGAGGCTGTTACACTAGCTCACTGGATCTGCCAAAGTTATAG                         TTACTATTTAGGGTCCGACTTACTGAGATCAGATTCTCTTGTTGGTGACAT
genomic: GGTTCTCCAGAGGCTGTTACACTAGCTCACTGGATCTGCCAAAGTTATAGgcgagtcgac ... gcaaaatcagTTACTATTTAGGGTCCGACTTACTGAGATCAGATTCTCTTGTTGGTGACAT
EST: gi|151393654|gb|EV263529.1|EV263529
EST:     GGTTCTCCAGAGGCTGTTACACTAGCTCACTGGATCTGCCAAAGTTATAG                         TTACTATTTAGGGTCCGACTTACTGAGATCAGATTCTCTTGTTGGTGACAT
genomic: GGTTCTCCAGAGGCTGTTACACTAGCTCACTGGATCTGCCAAAGTTATAGgcgagtcgac ... gcaaaatcagTTACTATTTAGGGTCCGACTTACTGAGATCAGATTCTCTTGTTGGTGACAT
EST: gi|5687903|gb|AI940918.1|AI940918
EST:     GGATCTCCAGAGGCTGTTACACTAGCTCACTGGATCTGCCAAAGTTATAG                         TTACTATTTAGGGTCCGACTTACTGAGATCAGATTCTCTTGTTGGTGACAT
genomic: GGTTCTCCAGAGGCTGTTACACTAGCTCACTGGATCTGCCAAAGTTATAGgcgagtcgac ... gcaaaatcagTTACTATTTAGGGTCCGACTTACTGAGATCAGATTCTCTTGTTGGTGACAT
EST: gi|6726825|gb|AW311244.1|AW311244
EST:     GGTTCTCCAGAGGCTGTTACACTAGCTCACTGGATCTGCCAAAGTTATAG                         TTACTATTTANGGTCCGACTTACTGAGATCAGATTCTCTTGTTGGTGACAT
genomic: GGTTCTCCAGAGGCTGTTACACTAGCTCACTGGATCTGCCAAAGTTATAGgcgagtcgac ... gcaaaatcagTTACTATTTAGGGTCCGACTTACTGAGATCAGATTCTCTTGTTGGTGACAT
EST: gi|5606755|gb|AI900853.1|AI900853
EST:     GGTTCTCCAGAGGCTGTTACACTAGCTCACTGGATCTGCCAAAGTTATAG                         TTACTATTTAGGGTCCGACTTACTGAGATCAGATTCTCTTGTTGGTGACAT
genomic: GGTTCTCCAGAGGCTGTTACACTAGCTCACTGGATCTGCCAAAGTTATAGgcgagtcgac ... gcaaaatcagTTACTATTTAGGGTCCGACTTACTGAGATCAGATTCTCTTGTTGGTGACAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgtcaaaaggaaatgtctaatatggtttttttcccgacatttttgcaaaatcagTTACTATTTAGGGTCCGACTTACTGAGATCAGATTCTCTTGTTGGTGACATGATGCTGAAACAACTGTGGCATCACCAGGATGCCATTCTATGCTGTTCA
               gtctaat  putative branch site (score: 3)
                                        tttttgc  putative PPT
                  taatatggttttttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gcgagtcgacctagctctctgttttaacatgctatttagtcaagtattctagttcatatttattgtcaaaaggaaatgtctaatatggtttttttcccgacatttttgcaaaatcagTTACTATTTAGGGTCCGACTTACTGAGATCAGATTCTCTTGTTGGTGACATGATGCTGAAACAACTGTGGCATCACCAGGATGCCATTCTATGCTGTTCA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGTT