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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagatgatttgaacttacattttggttaagtgatacatttcttgccttaggcattgctcatgtaagaaaacaatgcagAACTGGCTAATGCACCTGAAGAGTTGCGCCAACGCCTCATTCCTGAGCATGCAAGGAGTTGAATCAATTTGAAAGTTGAAACATCTCTAGGGCATTGTAA

Basic information

species Glycine max
transcript GLYMA07G08320.1
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA07G08320.1 (Glycine max), 3'ss of exon 12
lower sequence: Vv15s0048g02010.t01 (Vitis vinifera), 3'ss of exon 12
gtaagatgatttgaacttacattttggttaagtgatac-atttcttgccttaggcattgct--catgtaagaaaacaat-gcagAACTGGCTAATGCACCTGAAGAGTTGCGCCAACGCCTCATTCCTGAGCATGCAAGGAGTTGAATCAATTTGAAAG---TTGAAACATCTCTAGGGCATTGTAA
||||| | ||      || | || |  |    |  |   | ||  ||  |    | ||| |  ||  |   |||    |  |||| ||||   |  || ||   ||  |||| ||||| ||||||||||||||||||||||  | | | |||  | | |   | |   ||||| |||| || |    
gtaagctaatacaccatttccttataatcctcttctcttaattggtgattcttaccttggtatcacatgtcaaacttgtcacagAGCTGGTACACTCAACTCCTGAACTGCGTCAACGTCTCATTCCTGAGCATGCAAGGAAATAAGTTAATGAGCATGCACTGGTTTCATCTGTAGG-CAATAC--
















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|207761995|gb|GD734184.1|GD734184
EST:     CTTGCCTAATGGGCGACCTCCACCTCCTTTGTTCAACTTCACATCTCAAG                         AACTGGCTAATGCACCTGAAGAGTTGCGCCAACGCCTCATTCCTGAGCATG
genomic: CTTGCCTAATGGGCGACCTCTACCTCCTTTGTTCAACTTCACATCTCAAGgtaagatgat ... aacaatgcagAACTGGCTAATGCACCTGAAGAGTTGCGCCAACGCCTCATTCCTGAGCATG
EST: gi|4285120|gb|AI440866.1|AI440866
EST:     CTTGCCTAATGGGCGACCTCTACCTCCTTTGTTCAACTTCACATCTCAAG                         AACTGGCTAATGCACCTGAAGAGTTGCGCCAACGCCTCATTCCTGAGCATG
genomic: CTTGCCTAATGGGCGACCTCTACCTCCTTTGTTCAACTTCACATCTCAAGgtaagatgat ... aacaatgcagAACTGGCTAATGCACCTGAAGAGTTGCGCCAACGCCTCATTCCTGAGCATG
EST: gi|213604378|gb|DB978222.1|DB978222
EST:     CTTGCCTAATGGGCGACCTCTACCTCCTTTGTTCAACTTCACATCTCAAG                         AACTGGCTAATGCACCTGAAGAGTTGCGCCAACGCCTCATTCCTGAGCATG
genomic: CTTGCCTAATGGGCGACCTCTACCTCCTTTGTTCAACTTCACATCTCAAGgtaagatgat ... aacaatgcagAACTGGCTAATGCACCTGAAGAGTTGCGCCAACGCCTCATTCCTGAGCATG
EST: gi|213612270|gb|DB976847.1|DB976847
EST:     CCTCTACCTCCTTTGTTCAACTTCACATCTCAAG                         AACTGGCTAATGCACCTGAAGAGTTGCGCCAACGCCTCATTCCTGAGCATG
genomic: CCTCTACCTCCTTTGTTCAACTTCACATCTCAAGgtaagatgat ... aacaatgcagAACTGGCTAATGCACCTGAAGAGTTGCGCCAACGCCTCATTCCTGAGCATG
EST: gi|14259911|gb|BG882819.1|BG882819
EST:     CTTGCCTAATGGGCGACCTCTACCTCCTTTGTTCAACTTCACATCTCAAG                         AACTGGCTAATGCACCTGAAGAGTTGCGCCAACGCCTCATTCCTGAGCATG
genomic: CTTGCCTAATGGGCGACCTCTACCTCCTTTGTTCAACTTCACATCTCAAGgtaagatgat ... aacaatgcagAACTGGCTAATGCACCTGAAGAGTTGCGCCAACGCCTCATTCCTGAGCATG
EST: gi|22927972|gb|BU545111.1|BU545111
EST:     CTTGCCTAATGGGCGACCTCTACCTCCTTTGTTCAACTTCACATCTCAAG                         AACTGGCTAATGCACCTGAAGAGTTGCGCCAACGCCTCATTCCTGAGCATG
genomic: CTTGCCTAATGGGCGACCTCTACCTCCTTTGTTCAACTTCACATCTCAAGgtaagatgat ... aacaatgcagAACTGGCTAATGCACCTGAAGAGTTGCGCCAACGCCTCATTCCTGAGCATG
EST: gi|207746055|gb|GD717781.1|GD717781
EST:     CTTGCCTAATGGGCGACCTCCACCTCCTTTGTTCAACTTCACATCTCAAG                         AACTGGCTAATGCACCTGAAGAGTTGCGCCAACGCCTCATTCCTGAGCATG
genomic: CTTGCCTAATGGGCGACCTCTACCTCCTTTGTTCAACTTCACATCTCAAGgtaagatgat ... aacaatgcagAACTGGCTAATGCACCTGAAGAGTTGCGCCAACGCCTCATTCCTGAGCATG
EST: gi|14126698|gb|BG791136.1|BG791136
EST:     CTTGCCTAATGGGCGACCTCTACCTCCTTTGTTCAACTTCACATCTCAAG                         AACTGGCTAATGCACCTGAAGAGTTGCGCCAACGCCTCATTCCTGAGCATG
genomic: CTTGCCTAATGGGCGACCTCTACCTCCTTTGTTCAACTTCACATCTCAAGgtaagatgat ... aacaatgcagAACTGGCTAATGCACCTGAAGAGTTGCGCCAACGCCTCATTCCTGAGCATG
EST: gi|8827250|gb|BE210980.1|BE210980
EST:     CTTGCCTAATGGGCGACCTCTACCTCCTTTGTTCAACTTCACATCTCAAG                         AACTGGCTGATGCACCTGAAGAGTTGCGCCTACGCCTCATTCCTGAGCATG
genomic: CTTGCCTAATGGGCGACCTCTACCTCCTTTGTTCAACTTCACATCTCAAGgtaagatgat ... aacaatgcagAACTGGCTAATGCACCTGAAGAGTTGCGCCAACGCCTCATTCCTGAGCATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggttaagtgatacatttcttgccttaggcattgctcatgtaagaaaacaatgcagAACTGGCTAATGCACCTGAAGAGTTGCGCCAACGCCTCATTCCTGAGCATGCAAGGAGTTGAATCAATTTGAAAGTTGAAACATCTCTAGGGCATTGTAA
         atacattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagatgatttgaacttacattttggttaagtgatacatttcttgccttaggcattgctcatgtaagaaaacaatgcagAACTGGCTAATGCACCTGAAGAGTTGCGCCAACGCCTCATTCCTGAGCATGCAAGGAGTTGAATCAATTTGAAAGTTGAAACATCTCTAGGGCATTGTAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG