Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   		9  
 5'  3'   		10  
 5'  3'   		11  
 5'  3'   		12  
 5'  3'   		13  
 5'  3'   		14  
 5'  3'   		15  
 5'  3'   		16  
 5'  3'   		17  
 5'  3'   		18  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACACTGCTATGCCCCCAACAAAGCGCTTCCGTGATATGGAGCAGCTATCTGGTGGGGAAAAGACAGTTGCTGCACTTGCATTGCTATTCTCCATCCATAGgtagttgtttgtactaatattagaacaagaatattttgtaactactctgaatttgtgtttaataacacaaattcatctaatatactgacacatctcacataagcctaaaactattttgctgatatctgatcttcatgttccattaacatggttccctacttgcttcttgtttcag

Basic information

species Glycine max
transcript GLYMA13G18470.1
intron # 17
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G18470.1 (Glycine max), 5'ss of exon 17
lower sequence: AT3G54670.3 (Arabidopsis thaliana), 5'ss of exon 16
ACACTGCTATGCCCCCAACAAAGCGCTTCCGTGATATGGAGCAGCTATCTGGTGGGGAAAAGACAGTTGCTGCACTTGCATTGCTATTCTCCATCCATAGgtagttgtttgtactaatattagaacaagaatattttgtaactactctgaatttgtgtttaataacacaaattcatctaa-tatactgacacatctcacataagcctaaaactattttgctgatatctgatcttcatgttccattaacatggttccctacttgcttcttgtttcag
| ||| | ||||||||||||||||| || ||||| ||||| ||||| ||||| || || || |||||||| ||  | || ||||| |||||||| ||||||||    |    |   |  |    |    |    |||||  | |   | ||  ||  |||       || ||| || ||  | |  ||     | ||||       | |||                                                                 
ATACTACAATGCCCCCAACAAAGCGATTTCGTGACATGGAACAGCTCTCTGGAGGAGAGAAAACAGTTGCGGCCTTGGCGTTGCTCTTCTCCATACATAGgta----tcctcaacgacctagatatccca----tttgtttcaatgttaaaagtgattttgtaggttcatattgatttatctgtggtgtttagtttcactc---tttgaaa-----------------------------------------------------------------

upper sequence: GLYMA13G18470.1 (Glycine max), 5'ss of exon 17
lower sequence: Vv07s0005g03440.t01 (Vitis vinifera), 5'ss of exon 11
ACACTGCTATGCCCCCAACAAAGCGCTTCCGTGATATGGAGCAGCTATCTGGTGGGGAAAAGACAGTTGCTGCACTTGCATTGCTATTCTCCATCCATAGgtagttgtttgtactaatattagaacaagaatattttgtaactactctgaatttgtgtttaataacacaaattcatctaatatactgacacatctcacataagcctaaaactattttgctgatatctgatcttcatgttccattaacatggttccctacttgcttcttgtttcag
|||||||||||||||||||||||||||||||||||||||| ||||| |||||||| || || || ||||| |||||||||||||| ||||| |||||||||||      ||| | |  | || || ||  || |||| |   |  | || |      ||       |   |   ||   || |  ||| | || |    |||                                                                         
ACACTGCTATGCCCCCAACAAAGCGCTTCCGTGATATGGAACAGCTGTCTGGTGGTGAGAAAACTGTTGCAGCACTTGCATTGCTCTTCTCTATCCATAGgta------tgt-caaggaatacaagaaacattttttctgtatgttttggacaaaccttactctggatgcaggaataacatgtcttgaaatattttgtttaatttct--------------------------------------------------------------------
















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|9565678|gb|BE475187.1|BE475187
EST:     GGTGGGGAAAAGACAGTTGCTGCACTTGCATTGCTATTCTCCATCCATAG                         TTATAAGCCTTCACCATTCTTTATATTGGACGAAGTTGATGCTGCATTGGA
genomic: GGTGGGGAAAAGACAGTTGCTGCACTTGCATTGCTATTCTCCATCCATAGgtagttgttt ... cttgtttcagTTATAAGCCTTCACCATTCTTTATATTGGACGAAGTTGATGCTGCATTGGA
EST: gi|10231191|gb|BE800007.1|BE800007
EST:     GGTGGGGAAAAGACAGTTGCTGCACTTGCATTGCTATTCTCCATCCATAG                         TTATAAGCCTTCACCATTCTTTATATTGGACGAAGTTGATGCTGCATTGGA
genomic: GGTGGGGAAAAGACAGTTGCTGCACTTGCATTGCTATTCTCCATCCATAGgtagttgttt ... cttgtttcagTTATAAGCCTTCACCATTCTTTATATTGGACGAAGTTGATGCTGCATTGGA
EST: gi|6726074|gb|AW310473.1|AW310473
EST:     GGTGGGNAAAAGACAGTTGCTGCACTTGCATTGCTATTCTCCATCCATAG                         TTATAAGCCTTCACCATTCTTTATATTGGACGAAGTTGATGCTGCATTGGA
genomic: GGTGGGGAAAAGACAGTTGCTGCACTTGCATTGCTATTCTCCATCCATAGgtagttgttt ... cttgtttcagTTATAAGCCTTCACCATTCTTTATATTGGACGAAGTTGATGCTGCATTGGA
EST: gi|10237487|gb|BE806375.1|BE806375
EST:     GGTGGGGAAAAGACAGTTGCTGCACTTGCATTGCTATTCTCCATCCATAG                         TTATAAGCCTTCACCATTCTTTATATTGGACGAAGTTGATGCTGCATTGGA
genomic: GGTGGGGAAAAGACAGTTGCTGCACTTGCATTGCTATTCTCCATCCATAGgtagttgttt ... cttgtttcagTTATAAGCCTTCACCATTCTTTATATTGGACGAAGTTGATGCTGCATTGGA
EST: gi|6502274|gb|AW203647.1|AW203647
EST:     GGTGGGGAAAAGACAGTTGCTGCACTTGCATTGCTATTCTCCATCCATAG                         TTATAAGCCTTCACCATTCTTTATATTGGACGAAGTTGATGCTGCATTGGA
genomic: GGTGGGGAAAAGACAGTTGCTGCACTTGCATTGCTATTCTCCATCCATAGgtagttgttt ... cttgtttcagTTATAAGCCTTCACCATTCTTTATATTGGACGAAGTTGATGCTGCATTGGA
EST: gi|16343490|gb|BI969085.1|BI969085
EST:     GGTGGGGAAAAGACAGTTGCTGCACTTGCATTGCTATTCTCCATCCATAG                         TTATAAGCCTTCACCATTCTTTATATTGGACGAAGTTGATGCTGCATTGGA
genomic: GGTGGGGAAAAGACAGTTGCTGCACTTGCATTGCTATTCTCCATCCATAGgtagttgttt ... cttgtttcagTTATAAGCCTTCACCATTCTTTATATTGGACGAAGTTGATGCTGCATTGGA
EST: gi|31471677|gb|CD413705.1|CD413705
EST:     GGTGGGGAAAAGACAGTTGCTGCACTTGCATTGCTATTCTCCATCCATAG                         TTATAAGCCTTCACCATTCTTTATATTGGACGAAGTTGATGCTGCATTGGA
genomic: GGTGGGGAAAAGACAGTTGCTGCACTTGCATTGCTATTCTCCATCCATAGgtagttgttt ... cttgtttcagTTATAAGCCTTCACCATTCTTTATATTGGACGAAGTTGATGCTGCATTGGA
EST: gi|13562462|gb|BG550682.1|BG550682
EST:     GGTGGGGAAAAGACAGTTGCTGCACTTGCATTGCTATTCTCCATCCATAG                         TTATAAGCCTTCACCATTCTTTATATTGGACGAAGTTGATGCTGCATTGGA
genomic: GGTGGGGAAAAGACAGTTGCTGCACTTGCATTGCTATTCTCCATCCATAGgtagttgttt ... cttgtttcagTTATAAGCCTTCACCATTCTTTATATTGGACGAAGTTGATGCTGCATTGGA
EST: gi|31311145|gb|CD396348.1|CD396348
EST:     GGTGGGGAAAAGACAGTTGCTGCACTTGCATTGCTATTCTCCATCCATAG                         TTATAAGCCTTCACCATTCTTTATATTGGACGAAGTTGATGCTGCATTGGA
genomic: GGTGGGGAAAAGACAGTTGCTGCACTTGCATTGCTATTCTCCATCCATAGgtagttgttt ... cttgtttcagTTATAAGCCTTCACCATTCTTTATATTGGACGAAGTTGATGCTGCATTGGA
EST: gi|13252606|gb|BG363509.1|BG363509
EST:     GGTGGGGAAAAGACAGTTGCTGCACTTGCATTGCTATTCTCCATCCATAG                         TTATAAGCCTTCACCATTCTTTATATTGGACGAAGTTGATGCTGCATTGGA
genomic: GGTGGGGAAAAGACAGTTGCTGCACTTGCATTGCTATTCTCCATCCATAGgtagttgttt ... cttgtttcagTTATAAGCCTTCACCATTCTTTATATTGGACGAAGTTGATGCTGCATTGGA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ACACTGCTATGCCCCCAACAAAGCGCTTCCGTGATATGGAGCAGCTATCTGGTGGGGAAAAGACAGTTGCTGCACTTGCATTGCTATTCTCCATCCATAGgtagttgtttgtactaatattagaacaagaatattttgtaactactctgaatttgtgtttaataacacaaattcatctaatatactgacacatctcacataagcctaaaactattttgctgatatctgatcttcatgttccattaacatggttccctacttgcttcttgtttcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGCTGC