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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatacaaaacatactatttttttttttgacgatacgaaagatgctatgttgaataaatcagtttataataccttttatattgcacctgaattgctcattgaattatgcagGCCAAGATCACGATCCCGATCACGATCACGATCTGGATCTGGATCTCCTCATCAG

Basic information

species Glycine max
transcript GLYMA04G40740.2
intron # 11
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|19453352|gb|BM954762.1|BM954762
EST:     TCTAGGTCACGATCTAGATCTCAATCAGCATCACCAATCAAATCTTCTAG                         GCCAAGATCACGATCCCGATCACGATCACGATCTGGATCTGGATCTCCTCA
genomic: TCTAGGTCACGATCTAGATCTCAATCAGCATCACCAATCAAATCTTCTAGgtatacaaaa ... aattatgcagGCCAAGATCACGATCCCGATCACGATCACGATCTGGATCTGGATCTCCTCA
EST: gi|19453608|gb|BM955018.1|BM955018
EST:     TCTAGGTCACGATCTAGATCTCAATCAGCATCACCAATCAAATCTTCTAG                         GCCAAGATCACGATCCCGATCACGATCACGATCTGGATCTGGATCTCCTCA
genomic: TCTAGGTCACGATCTAGATCTCAATCAGCATCACCAATCAAATCTTCTAGgtatacaaaa ... aattatgcagGCCAAGATCACGATCCCGATCACGATCACGATCTGGATCTGGATCTCCTCA
EST: gi|9819996|gb|BE555509.1|BE555509
EST:     TCTAGGTCACGATCTAGATCTCAATCAGCATCACCAATCAAATCTTCTAG                         GCCAAGATCACTATCCCGATCACTATCACGATCTGGATCTGGATCTCCTC
genomic: TCTAGGTCACGATCTAGATCTCAATCAGCATCACCAATCAAATCTTCTAGgtatacaaaa ... aattatgcagGCCAAGATCACGATCCCGATCACGATCACGATCTGGATCTGGATCTCCTC
EST: gi|21601642|gb|BQ611973.1|BQ611973
EST:     TCTAGGTCACGATCTAGATCTCAATCAGCATCACCAATCAAATCTTCTAG                         GCCAAGATCACGATCCCGATCACGATCACGATCTGGATCTGGATCTCCTCA
genomic: TCTAGGTCACGATCTAGATCTCAATCAGCATCACCAATCAAATCTTCTAGgtatacaaaa ... aattatgcagGCCAAGATCACGATCCCGATCACGATCACGATCTGGATCTGGATCTCCTCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatcagtttataataccttttatattgcacctgaattgctcattgaattatgcagGCCAAGATCACGATCCCGATCACGATCACGATCTGGATCTGGATCTCCTCATCAG
      tttataatacctttta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatacaaaacatactatttttttttttgacgatacgaaagatgctatgttgaataaatcagtttataataccttttatattgcacctgaattgctcattgaattatgcagGCCAAGATCACGATCCCGATCACGATCACGATCTGGATCTGGATCTCCTCATCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTCCTC