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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttcattgtattgtttggtatgtttgttggtaatcatctttttgtttgattttggcttactgtagctatagtaaattcctttctatatatatccttcacagGAAATGATCAATTCTTGGAGTGTGCCTTTTACTGAAGCATTTAGAAAATCAAATGATGTTCATTTATATCAG

Basic information

species Glycine max
transcript GLYMA13G29120.1
intron # 4
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|5677979|gb|AI939109.1|AI939109
EST:     CTGTCCCCAAGGCATCTTTGGTTTGTCTTTCATTTCGAGCAAGCTCCCAG                         GAAATGATCAATTCTTGGAGTGTGCCTTTTACTGAAGCATTTAGAAAATCA
genomic: CTGTCCCCAAGGCATCTTTGGTTTGTCTTTCATTTCGAGCAAGCTCCCAGgtaacgaatc ... tccttcacagGAAATGATCAATTCTTGGAGTGTGCCTTTTACTGAAGCATTTAGAAAATCA
EST: gi|213589266|gb|DB957798.1|DB957798
EST:     CTGTCCCCAAGGCATCTTTGGTTTGTCTTTCATTTCGAGCAAGCTCCCAG                         GAAATGATCAATTTCTTGGAGTGTGCCTTTTACTGAAGCATTTAGAANATC
genomic: CTGTCCCCAAGGCATCTTTGGTTTGTCTTTCATTTCGAGCAAGCTCCCAGgtaacgaatc ... tccttcacagGAAATGATCAATT-CTTGGAGTGTGCCTTTTACTGAAGCATTTAGAAAATC
EST: gi|192316411|gb|FK008172.1|FK008172
EST:     CTGTCCCCAAGGCATCTTTGGTTTGTCTTTCATTTCGAGCAAGCTCCCAG                         GAAATGATCAATTCTTGGAGTGTGCCTTTTACTGAAGCATTTAGAAAATCA
genomic: CTGTCCCCAAGGCATCTTTGGTTTGTCTTTCATTTCGAGCAAGCTCCCAGgtaacgaatc ... tccttcacagGAAATGATCAATTCTTGGAGTGTGCCTTTTACTGAAGCATTTAGAAAATCA
EST: gi|192299154|gb|FG990440.1|FG990440
EST:     CTGTCCCCAAGGCATCTTTGGTTTGTCTTTCATTTCGAGCAAGCTCCCAG                         GAAATGATCAATTCTTGGAGTGTGCCTTTTACTGAAGCATTTAGAAAATCA
genomic: CTGTCCCCAAGGCATCTTTGGTTTGTCTTTCATTTCGAGCAAGCTCCCAGgtaacgaatc ... tccttcacagGAAATGATCAATTCTTGGAGTGTGCCTTTTACTGAAGCATTTAGAAAATCA
EST: gi|20813684|gb|BQ298162.1|BQ298162
EST:     CTGTCCCCAAGGCATCTTTGGTTTGTCTTTCATTTCGAGCAAGCTCCCAG                         GAAATGATCAATTCTTGGAGTGTGCCTTTTACTGAAGCATTTAGAAAATCA
genomic: CTGTCCCCAAGGCATCTTTGGTTTGTCTTTCATTTCGAGCAAGCTCCCAGgtaacgaatc ... tccttcacagGAAATGATCAATTCTTGGAGTGTGCCTTTTACTGAAGCATTTAGAAAATCA
EST: gi|193304045|gb|FK271166.1|FK271166
EST:     CGAGCAAGCTCCCAG                         GAAATGATCAATTCTTGGAGTGTGCCTTTTACTGAAGCATTTAGAAAATCA
genomic: CGAGCAAGCTCCCAGgtaacgaatc ... tccttcacagGAAATGATCAATTCTTGGAGTGTGCCTTTTACTGAAGCATTTAGAAAATCA
EST: gi|18039580|gb|BM307874.1|BM307874
EST:     CTGTCCCCAAGGCATCTTTGGTTTGTCTTTCATTTCGAGCAAGCTCCCAG                         GAAATGATCAATTCTTGGAGTGTGCCTTTTACTGAAGCATTTAGAAAATCA
genomic: CTGTCCCCAAGGCATCTTTGGTTTGTCTTTCATTTCGAGCAAGCTCCCAGgtaacgaatc ... tccttcacagGAAATGATCAATTCTTGGAGTGTGCCTTTTACTGAAGCATTTAGAAAATCA
EST: gi|192316412|gb|FK008173.1|FK008173
EST:     CTGTCCCCAAGGCATCTTTGGTTTGTCTTTCATTTCGAGCAAGCTCCCAG                         GAAATGATCAATTCTTGGAGTGTGCCTTTTACTGAAGCATTTAGAAAATCA
genomic: CTGTCCCCAAGGCATCTTTGGTTTGTCTTTCATTTCGAGCAAGCTCCCAGgtaacgaatc ... tccttcacagGAAATGATCAATTCTTGGAGTGTGCCTTTTACTGAAGCATTTAGAAAATCA
EST: gi|209715409|gb|BW682127.1|BW682127
EST:     CTGTCCCCAAGGCATCTTTGGTTTGTCTTTCATTTCGAGCAAGCTCCCAG                         GAAATGATCAATTCTTGGAGTGTGCCTTTTACTGAAGCATTTA
genomic: CTGTCCCCAAGGCATCTTTGGTTTGTCTTTCATTTCGAGCAAGCTCCCAGgtaacgaatc ... tccttcacagGAAATGATCAATTCTTGGAGTGTGCCTTTTACTGAAGCATTTA
EST: gi|298196738|gb|HO041481.1|HO041481
EST:     CCGTCCCCAAGGCATCTTTGGTTTGTCTTTCATTTCGAGCAAGCTCCCAG                         GAAATGATCAATTCTTGGAGTGTGCCTTTTACTGAAGCATTTAGAAAATCA
genomic: CTGTCCCCAAGGCATCTTTGGTTTGTCTTTCATTTCGAGCAAGCTCCCAGgtaacgaatc ... tccttcacagGAAATGATCAATTCTTGGAGTGTGCCTTTTACTGAAGCATTTAGAAAATCA
EST: gi|10253538|gb|BE821304.1|BE821304
EST:     CTGTCCCCAAGGCATCTNNGGTTTGTCTTTCATTTCGAGCAAGCTCCCAG                         GAAATGATCAATTCTTGGAGTGTGCCTTTTACTGAAGCATTTAGAAAATCA
genomic: CTGTCCCCAAGGCATCTTTGGTTTGTCTTTCATTTCGAGCAAGCTCCCAGgtaacgaatc ... tccttcacagGAAATGATCAATTCTTGGAGTGTGCCTTTTACTGAAGCATTTAGAAAATCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgattttggcttactgtagctatagtaaattcctttctatatatatccttcacagGAAATGATCAATTCTTGGAGTGTGCCTTTTACTGAAGCATTTAGAAAATCAAATGATGTTCATTTATATCAG
       ggcttac  putative branch site (score: 3)
                                           tatccttc  putative PPT
                         taaattcctttctata  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttcattgtattgtttggtatgtttgttggtaatcatctttttgtttgattttggcttactgtagctatagtaaattcctttctatatatatccttcacagGAAATGATCAATTCTTGGAGTGTGCCTTTTACTGAAGCATTTAGAAAATCAAATGATGTTCATTTATATCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - -ttgtttg
- - - - - - - - - -tgtttgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctgtagc