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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aacaaaaattcaacctaattttgaatgtttacatattggaaggtcgttgtaactagtttaaatgtaattgttcttttaatttttattcattcttttacagATATGTTGAACGTGTTGCCAATTGTAAATGGGAAGTAAAAGAGCTCGGCATGGAGCATAACGG

Basic information

species Glycine max
transcript GLYMA12G08830.1
intron # 19
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|51336220|gb|CO980086.1|CO980086
EST:     ACAGAACATGTTCATCGGACTACAGTGAGACTACTGTTGCACATTANNNG                         ATATGTTGAACGTGTTGCCAATTGTAAATGGGAAGTAAAAGAGCTCGGCAT
genomic: ACAGAACATGTTCATCGGACTACAGTGAGACTACTGTTGCACATTAATGGgtaagacaaa ... tcttttacagATATGTTGAACGTGTTGCCAATTGTAAATGGGAAGTAAAAGAGCTCGGCAT
EST: gi|42722693|gb|CK768592.1|CK768592
EST:     ACAGAACATGTTCATCGGACTACAGTGAGACTACTGTTGCACATTAATGG                         ATATGTTGAACGTGTTGCCAATTGTAAATGGGAAGTAAAAGAGCTCGGCAT
genomic: ACAGAACATGTTCATCGGACTACAGTGAGACTACTGTTGCACATTAATGGgtaagacaaa ... tcttttacagATATGTTGAACGTGTTGCCAATTGTAAATGGGAAGTAAAAGAGCTCGGCAT
EST: gi|193346167|gb|FK310555.1|FK310555
EST:     CACATTAATGG                         ATATGTTGAACGTGTTGTCCAATTGTAAATGGGAAGTAAAAGAGCTCGGCA
genomic: CACATTAATGGgtaagacaaa ... tcttttacagATATGTTGAACGTGTTG-CCAATTGTAAATGGGAAGTAAAAGAGCTCGGCA
EST: gi|58014856|gb|CX701598.1|CX701598
EST:     ACGGAACATGTTCATCGGATTACAGTGAGACTACTGTTGCACATTAATGG                         ATATGTTGAACGTGTTGCCAATTGTAAATGGGAAGTAAAAGAGCTCGGCAT
genomic: ACAGAACATGTTCATCGGACTACAGTGAGACTACTGTTGCACATTAATGGgtaagacaaa ... tcttttacagATATGTTGAACGTGTTGCCAATTGTAAATGGGAAGTAAAAGAGCTCGGCAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttgtaactagtttaaatgtaattgttcttttaatttttattcattcttttacagATATGTTGAACGTGTTGCCAATTGTAAATGGGAAGTAAAAGAGCTCGGCATGGAGCATAACGG
                                  tttttattcattcttt  CT-rich tract
           tttaaatgtaattgtt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aacaaaaattcaacctaattttgaatgtttacatattggaaggtcgttgtaactagtttaaatgtaattgttcttttaatttttattcattcttttacagATATGTTGAACGTGTTGCCAATTGTAAATGGGAAGTAAAAGAGCTCGGCATGGAGCATAACGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCA
aacaaaa
- - - - - caaccta
- - - - - - - - - - -tgaatgt
- - - - - - - - - - - - - - - - - - tggaagg