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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGAGCACAATGTGACAGATGATTTTAAATCTTTATGTGATAATCTTAAAGCAAGAAAGTACATTTTGGATGAGCTCAACAGCACTGGTCAGAAACACCAAgtacgtttatataattcattatcgtatgcatgtagtttttggttttatgatatattttgctcgtgttacctacaattgacatgaaataaacattcag

Basic information

species Glycine max
transcript GLYMA07G20860.1
intron # 17
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA07G20860.1 (Glycine max), 5'ss of exon 17
lower sequence: Vv03s0063g01880.t01 (Vitis vinifera), 5'ss of exon 17
AGAGCACAATGTGACAGATGATTTTAAATCTTTATGTGATAATCTTAAAGCAAGAAAGTACATTTTGGATGAGCTCAACAGCACTGGTCAGAAACACCAAgtacgtttatataattcattatcgtatgcatgtagtttttggttttatgatatattttgctcgtgttacctacaattgacatgaaataaacattcag
| | || |||||||| |  |||||||||||||| ||||| ||  |  | ||||| || |||||||| ||||||||||| | ||| |||||||| ||||||||| ||| ||||| ||| |  |  | ||    || ||  | | || || || | |||  ||    | |   ||  |  |||                
AAACCATAATGTGACTGGAGATTTTAAATCTTTGTGTGAAAACTTGGAGGCAAGGAAATACATTTTAGATGAGCTCAATAACACCGGTCAGAATCACCAAgtatgttgatata-ttcttgtttctctggtgctacttccttgcttaattatgtttttgtctgacctaaagaactctgcacag---------------
















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|308098952|gb|HO760793.1|HO760793
EST:     CAAGAAAACACATTTTGGATGAGCTCAACAGCACTGGTCAGAAACACCAA                         CTTAGAGGATTTGAGCTGCTAAAAGCCATTCATCTGGAACCAAATCCCTTC
genomic: CAAGAAAGTACATTTTGGATGAGCTCAACAGCACTGGTCAGAAACACCAAgtacgtttat ... aaacattcagCTTAGAGGATTTGAGCTGCTAAAAGCCATTCATCTGGAACCAATTCCCTTT
EST: gi|13481660|gb|BG511003.1|BG511003
EST:     CAAGAAAGTACATTTTGGATGAGCTCAACAGCACTGGTCAGAAACACCAA                         CTTAGAGGATTTGAGCTGCTAAAAGCCATTCATCTGGAACCAA
genomic: CAAGAAAGTACATTTTGGATGAGCTCAACAGCACTGGTCAGAAACACCAAgtacgtttat ... aaacattcagCTTAGAGGATTTGAGCTGCTAAAAGCCATTCATCTGGAACCAA
EST: gi|192308617|gb|FG999712.1|FG999712
EST:     CAAGAAAGTACATTTTGGATGAGCTCAACAGCACTGGTCAGAAACACCAA                         CTTTGGAGGATTTGAGCTGCTAAAAGCCATTCATCTGGAACCAATTCCCTT
genomic: CAAGAAAGTACATTTTGGATGAGCTCAACAGCACTGGTCAGAAACACCAAgtacgtttat ... aaacattcagCTTAG-AGGATTTGAGCTGCTAAAAGCCATTCATCTGGAACCAATTCCCTT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AGAGCACAATGTGACAGATGATTTTAAATCTTTATGTGATAATCTTAAAGCAAGAAAGTACATTTTGGATGAGCTCAACAGCACTGGTCAGAAACACCAAgtacgtttatataattcattatcgtatgcatgtagtttttggttttatgatatattttgctcgtgttacctacaattgacatgaaataaacattcag

- - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTCA