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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtcgtttcctctttgtttctcgtattttttctgaactttttttgcttaatgaattttccttcctttatttacagtttataacgttcctctgtttttgttgtcagATGATGGAAAATATGCTCCTCCAAGAGGGAGACATTGTAAAAGTGAAAAACACCAACCTTGCAAAAGGAACGTATGTGAAGCTGCAGCCTCACACAAAGG

Basic information

species Glycine max
transcript GLYMA15G04140.1
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|209707768|gb|BW683660.1|BW683660
EST:     GGGTGCTAGAATTCGTATCTGATGAAGGGATCATATATATCCCATACTGG                         ATGATGGAAAATATGCTCCTCCAAGAGGGAGACATTGTAAAAGTGAAAAAC
genomic: GGGTGCTAGAATTCGTATCTGATGAAGGGATCATATATATCCCATACTGGgtatgtcgtt ... ttgttgtcagATGATGGAAAATATGCTCCTCCAAGAGGGAGACATTGTAAAAGTGAAAAAC
EST: gi|298175906|gb|HO015311.1|HO015311
EST:     GGGTGCTAGAATTCGTATCTGATGAAGGGGTCATATATATCCCATACTGG                         ATGATGGAAAATATGCTCCTCCAAGAGGGAGACATTGTAAAAGTGAAAAAC
genomic: GGGTGCTAGAATTCGTATCTGATGAAGGGATCATATATATCCCATACTGGgtatgtcgtt ... ttgttgtcagATGATGGAAAATATGCTCCTCCAAGAGGGAGACATTGTAAAAGTGAAAAAC
EST: gi|37993996|gb|CF805742.1|CF805742
EST:     GGGTGCTAGAATTCGTATCTGATGAAGGGATCATATATATCCCATACTGG                         ATGATGGAAAATATGCTCCTCCAAGAGGGAGACATTGTAAAAGTGAAAAAC
genomic: GGGTGCTAGAATTCGTATCTGATGAAGGGATCATATATATCCCATACTGGgtatgtcgtt ... ttgttgtcagATGATGGAAAATATGCTCCTCCAAGAGGGAGACATTGTAAAAGTGAAAAAC
EST: gi|16349341|gb|BI974936.1|BI974936
EST:     GGGTGCTAGAATTCGTATCTGATGAAGGGATCATATATATCCCATACTGG                         ATGAAGGAAAATATGCTCCTCCAAGA
genomic: GGGTGCTAGAATTCGTATCTGATGAAGGGATCATATATATCCCATACTGGgtatgtcgtt ... ttgttgtcagATGATGGAAAATATGCTCCTCCAAGA
EST: gi|120533678|gb|EH261811.1|EH261811
EST:     GGGTGCTAGAATTCGTATCTGATGAAGGGATCATATATATCCCATACTGG                         ATGATGGAAAATATGCTCCTCCAAGAGGGAGACATTGTAAAAGTGAAAAAC
genomic: GGGTGCTAGAATTCGTATCTGATGAAGGGATCATATATATCCCATACTGGgtatgtcgtt ... ttgttgtcagATGATGGAAAATATGCTCCTCCAAGAGGGAGACATTGTAAAAGTGAAAAAC
EST: gi|15664016|gb|BI701387.1|BI701387
EST:     GGGTGCTAGAATTCGTATCTGATGAAGGGATCATATATATCCCATACTGG                         ATGATGGAAAATATGCTCCTCCAAGAGGGAGACATTGTAAAAGTGAAAAAC
genomic: GGGTGCTAGAATTCGTATCTGATGAAGGGATCATATATATCCCATACTGGgtatgtcgtt ... ttgttgtcagATGATGGAAAATATGCTCCTCCAAGAGGGAGACATTGTAAAAGTGAAAAAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgaattttccttcctttatttacagtttataacgttcctctgtttttgttgtcagATGATGGAAAATATGCTCCTCCAAGAGGGAGACATTGTAAAAGTGAAAAACACCAACCTTGCAAAAGGAACGTATGTGAAGCTGCAGCCTCACACAAAGG
                          ttataac  putative branch site (score: 2)
                                  ttcctctgtttttgtt  CT-rich tract
              tttatttacagtttat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatgtcgtttcctctttgtttctcgtattttttctgaactttttttgcttaatgaattttccttcctttatttacagtttataacgttcctctgtttttgttgtcagATGATGGAAAATATGCTCCTCCAAGAGGGAGACATTGTAAAAGTGAAAAACACCAACCTTGCAAAAGGAACGTATGTGAAGCTGCAGCCTCACACAAAGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGCAG