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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AACTGCAATTGACATGTGGTCAGTGGGTTGCATAATGGCTGAATTAATTGCCAAGGAACCTCTGTTCAGGGGTAAAAGTGAACTTGAACAACTTGATAAGgttattattactaaaatcacttggtttttcttcacatcctctatttatgagagctctgctattctagtaaataacttatttgtttgtcaaatgtctgcag

Basic information

species Glycine max
transcript GLYMA05G03110.2
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G03110.2 (Glycine max), 5'ss of exon 2
lower sequence: Vv17s0000g01810.t01 (Vitis vinifera), 5'ss of exon 3
AACTGCAATTGACATGTGGTCAGTGGGTTGCATAATGGCTGAATTAATTGCCAAGGAACCTCTGTTCAGGGGTAAAAGTGAACTTGAACAACTTGATAAGgttattattac--taaaatcacttggtttttcttcacatcctctatttatgagagctctgctattctagtaaataacttatttgtttgtcaaatgtctgcag
||| ||||||||||||||||| |||||||| |||||||||||| |  | || || || || || |||   || |||| |||| | || || ||||| ||||| ||||||    |  | |  ||  |||| | ||| ||| |  |  || ||     ||||    || ||| ||  | ||         | |||| | |||||
AACGGCAATTGACATGTGGTCTGTGGGTTGTATAATGGCTGAACTTTTAGCGAAAGAGCCACTATTCCAAGGGAAAACTGAATTGGATCAGCTTGACAAGgtaattattgtgttttatttgctgagtttgttttctcattcattccttctg-----tctg----tccagtgaaacattt-------cattaaatttttgcag

upper sequence: GLYMA05G03110.2 (Glycine max), 5'ss of exon 2
lower sequence: EFJ34843 (Selaginella moellendorffii), 5'ss of exon 3
AACTGCAATTGACATGTGGTCAGTGGGTTGCATAATGGCTGAATTAATTGCCAAGGAACCTCTGTTCAGGGGTAAAAGTGAACTTGAACAACTTGATAAGgttattattactaaaat-cacttggtttttcttcacatcctctatttatgagagctctgctattctagtaaataacttatttgtttgtcaaatgtctgcag
  |||| ||||||||||||||  |||||||||| ||||| |||||  | ||||| |||||| ||||||  || ||   |||| | || || || || ||||| | || | || || | ||  |    | | |     || | | |  |    ||                                               
TGCTGCCATTGACATGTGGTCCTTGGGTTGCATTATGGCAGAATTCCTCGCCAAAGAACCTTTGTTCACCGGGAAGTCTGAAATAGACCAGCTGGACAAGgtcagtaattctgaagtacatctacaatatatctgtgtctt-tctacactgcag-----------------------------------------------
















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|26048034|gb|CA784645.1|CA784645
EST:     CCAAGGAACCTCTGTTCAGGGGTAAAAGTGAACTTGAACAACTTGATAAG                         ATTTTTCGAACCCTGGGTACACCTGATGAGAAAATTTGGCCAGGATTATCC
genomic: CCAAGGAACCTCTGTTCAGGGGTAAAAGTGAACTTGAACAACTTGATAAGgttattatta ... atgtctgcagATTTTTCGAACCCTGGGTACGCCTGATGAGAAAATTTGGCCAGGATTATCC
EST: gi|9820225|gb|BE555735.1|BE555735
EST:     CCAAGGAACCTCTGTTCAGGGGTAAAAGTGAACTTGAACAACTTGATAAG                         ATTTTTCGAACCCTGGGTACGCCTGATGAGAAAATTTGGCCAGGATTATCC
genomic: CCAAGGAACCTCTGTTCAGGGGTAAAAGTGAACTTGAACAACTTGATAAGgttattatta ... atgtctgcagATTTTTCGAACCCTGGGTACGCCTGATGAGAAAATTTGGCCAGGATTATCC
EST: gi|254316795|gb|GR828332.1|GR828332
EST:     CCAAGGAACCTCTGTTCAGGGGTAAAAGTGAACTTGAACAACTTGATAAG                         ATTTTTCGAACCCTGGGTACGCCTGATGAGAAAATTTGGCCAGGATTATCC
genomic: CCAAGGAACCTCTGTTCAGGGGTAAAAGTGAACTTGAACAACTTGATAAGgttattatta ... atgtctgcagATTTTTCGAACCCTGGGTACGCCTGATGAGAAAATTTGGCCAGGATTATCC
EST: gi|193407826|gb|FK372376.1|FK372376
EST:     CCAAGGAACCTCTGTTCAGGGGTAAAAGTGAACTTGAACAACTTGATAAG                         ATTTTTCGAACCCTGGGTACGCCTGATGAGAAAATTTGGCCAGGATTATCC
genomic: CCAAGGAACCTCTGTTCAGGGGTAAAAGTGAACTTGAACAACTTGATAAGgttattatta ... atgtctgcagATTTTTCGAACCCTGGGTACGCCTGATGAGAAAATTTGGCCAGGATTATCC
EST: gi|11274456|gb|BF324809.1|BF324809
EST:     CCAAGGAACCTCTGTTCAGGGGTAAAAGTGAACTTGAACAACTTGATAAG                         ATTTTTCGAACCCTGGGTACGCCTGATGAGAAAATTTGGCCAGGATTATCC
genomic: CCAAGGAACCTCTGTTCAGGGGTAAAAGTGAACTTGAACAACTTGATAAGgttattatta ... atgtctgcagATTTTTCGAACCCTGGGTACGCCTGATGAGAAAATTTGGCCAGGATTATCC
EST: gi|254316796|gb|GR828333.1|GR828333
EST:     CCAAGGAACCTCTGTTCAGGGGTAAAAGTGAACTTGAACAAC-TGATAAG                         ATTTTTCGAACCCTGGGTACG-CTGATGAGAAAATTTGGCCAGGATTATCC
genomic: CCAAGGAACCTCTGTTCAGGGGTAAAAGTGAACTTGAACAACTTGATAAGgttattatta ... atgtctgcagATTTTTCGAACCCTGGGTACGCCTGATGAGAAAATTTGGCCAGGATTATCC
EST: gi|193458791|gb|FK425112.1|FK425112
EST:     CCAAGGAACCTCTGTTCAGGGGTAAAAGTGAACTTGAACAACTTGATAAG                         ATTTTTCGAACCCTGGGTACGCCTGATGAGAAAATTTGGCCAGGATTATCC
genomic: CCAAGGAACCTCTGTTCAGGGGTAAAAGTGAACTTGAACAACTTGATAAGgttattatta ... atgtctgcagATTTTTCGAACCCTGGGTACGCCTGATGAGAAAATTTGGCCAGGATTATCC
EST: gi|261497065|gb|GT185240.1|GT185240
EST:     CCAAGGAACCTCTGTTCAGGGGTAAAAGTGAACTTGAACAACTTGATAAG                         ATTTTTCGAACCCT
genomic: CCAAGGAACCTCTGTTCAGGGGTAAAAGTGAACTTGAACAACTTGATAAGgttattatta ... atgtctgcagATTTTTCGAACCCT
EST: gi|13312181|gb|BG405841.1|BG405841
EST:     CCAAGGAACCTCTGTTCAGGGGTAAAAGTGAACTTGAACAACTTGATAAG                         ATTTTTCGAACCCTGGGTACGCCTGATGAGAAAATTTGGCCAGGATTATCC
genomic: CCAAGGAACCTCTGTTCAGGGGTAAAAGTGAACTTGAACAACTTGATAAGgttattatta ... atgtctgcagATTTTTCGAACCCTGGGTACGCCTGATGAGAAAATTTGGCCAGGATTATCC
EST: gi|13312098|gb|BG405749.1|BG405749
EST:     CCAAGGAACCTCTG-TCAGGGGTAAAAGTGAACTTGAACAACTTGATAAG                         ATTTTTCGAACCCTGGGTACGCCTGATGAGAAAATTTGGCCAGGATTATCC
genomic: CCAAGGAACCTCTGTTCAGGGGTAAAAGTGAACTTGAACAACTTGATAAGgttattatta ... atgtctgcagATTTTTCGAACCCTGGGTACGCCTGATGAGAAAATTTGGCCAGGATTATCC
EST: gi|15661958|gb|BI699329.1|BI699329
EST:     CCAAGGAACCTCTGTTCAGGGGTAAAAGTGAACTTGAACAACTTGATAAG                         ATTTTTCGAACCCTGGGTACGCCTGATGAGAAAATTTGGCCAGGATTATCC
genomic: CCAAGGAACCTCTGTTCAGGGGTAAAAGTGAACTTGAACAACTTGATAAGgttattatta ... atgtctgcagATTTTTCGAACCCTGGGTACGCCTGATGAGAAAATTTGGCCAGGATTATCC
EST: gi|298184961|gb|HO030174.1|HO030174
EST:     CCAAGGAACCTCTGTTCAGGGGTAAAAGTGAACTTGAACAACTTGATAAG                         ATTTTTCGAACCCTGGGTACGCCTGATGAGAAAATTTGGCCAGGATTATCC
genomic: CCAAGGAACCTCTGTTCAGGGGTAAAAGTGAACTTGAACAACTTGATAAGgttattatta ... atgtctgcagATTTTTCGAACCCTGGGTACGCCTGATGAGAAAATTTGGCCAGGATTATCC
EST: gi|192310694|gb|FK001118.1|FK001118
EST:     CCAAGGAACCTCTGTTCAGGGGTAAAAGTGAACTTGAACAACTTGATAAG                         ATTTTTCGAACCCTGGGTACGCCTGATGAGAAAATTTGGCCAGGATTATCC
genomic: CCAAGGAACCTCTGTTCAGGGGTAAAAGTGAACTTGAACAACTTGATAAGgttattatta ... atgtctgcagATTTTTCGAACCCTGGGTACGCCTGATGAGAAAATTTGGCCAGGATTATCC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AACTGCAATTGACATGTGGTCAGTGGGTTGCATAATGGCTGAATTAATTGCCAAGGAACCTCTGTTCAGGGGTAAAAGTGAACTTGAACAACTTGATAAGgttattattactaaaatcacttggtttttcttcacatcctctatttatgagagctctgctattctagtaaataacttatttgtttgtcaaatgtctgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA