Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gacatattgtggaaatagctaattgttaaatcaaccggtgttctgaaattcctaagtgattcatcggcggaactgatgctttgaattgattttgttgcagAATGGGACCACTGAGGAGGTGAAGAAGATTGTTACTACTTTAAATGAAGCTAAAGTCCCTGGAGAAGATGTTGTAG

Basic information

species Glycine max
transcript GLYMA13G41120.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G41120.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv06s0004g04800.t01 (Vitis vinifera), 3'ss of exon 1
---gacatattgtggaaatagctaattgttaaatcaaccggtgttctg-aaattcctaagtgattcatcggcggaactgatgctttgaattgattttgttgcagAATGGGACCACTGAGGAGGTGAAGAAGATTGTTACTACTTTAAATGAAGCTAAAGTCCCTGGAGAAGATGTTGTAG
       | |  |||| | ||||         | ||     |  | || |||||  | | ||| | || ||   || |     ||| | || || |   |||||||||| ||   |||||||||||||||||||||||||  ||| ||||| ||| |||| ||    |||||  |||| |
tttcttgtctattggacacagcttgagaaaccaccactgaattatgtgtaaattattgaatgaatgatgggttaaagt----ttttaatttaatatcaatgcagAATGGAACAGTTGAGGAGGTGAAGAAGATTGTTACTGTTTTGAATGAGGCTGAAGTTCCGTCCGAAGACATTGTGG
















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|6071447|gb|AW100834.1|AW100834
EST:     GGCAACTGGAAATGC                         AATGGGACCACTGAGGAGGTGAAGAAGATTGTTACTACTTTAAATGAAGCT
genomic: GGCAACTGGAAATGCgtatgtttca ... tttgttgcagAATGGGACCACTGAGGAGGTGAAGAAGATTGTTACTACTTTAAATGAAGCT
EST: gi|208185572|gb|GD982085.1|GD982085
EST:     TCATGGGCAGAAAATTCTTCGTCGGTGGCAACTGGAAATGC                         AATGGGACCACTGAGGAGGTGAAGAAGATTGTTACTACTTTAAATGAAGCT
genomic: TCATGGGCAGAAAATTCTTCGTCGGTGGCAACTGGAAATGCgtatgtttca ... tttgttgcagAATGGGACCACTGAGGAGGTGAAGAAGATTGTTACTACTTTAAATGAAGCT
EST: gi|18040397|gb|BM308691.1|BM308691
EST:     CAGAAAATTCTTCGTCGGTGGCAACTGGAAATGC                         AATGGGACCACTGAGGAGGTGAAGAAGATTGTTACTACTTTAAATGAAGCT
genomic: CAGAAAATTCTTCGTCGGTGGCAACTGGAAATGCgtatgtttca ... tttgttgcagAATGGGACCACTGAGGAGGTGAAGAAGATTGTTACTACTTTAAATGAAGCT
EST: gi|6915528|gb|AW397058.1|AW397058
EST:     TCATGGGCAGAAAATTCTTCGTCGGTGGCAACTGGAAATGC                         AATGGGACCACTGAGGAGGTGAAGAAGATTGTTACTACTTTAAATGAAGCT
genomic: TCATGGGCAGAAAATTCTTCGTCGGTGGCAACTGGAAATGCgtatgtttca ... tttgttgcagAATGGGACCACTGAGGAGGTGAAGAAGATTGTTACTACTTTAAATGAAGCT
EST: gi|192308239|gb|FK002751.1|FK002751
EST:     CGNNNNNNNTCATGGGCAGAAAATTCTTCGTCGGTGGCAACTGGAAATGC                         AATGGGACCACTGAGGAGGTGAAGAAGATTGTTACTACTTTAAATGAAGCT
genomic: CGAAAAAAATCATGGGCAGAAAATTCTTCGTCGGTGGCAACTGGAAATGCgtatgtttca ... tttgttgcagAATGGGACCACTGAGGAGGTGAAGAAGATTGTTACTACTTTAAATGAAGCT
EST: gi|15662424|gb|BI699795.1|BI699795
EST:     CGNNNNNNNTCATGGGCAGAAAATTCTTCGTCGGTGGCAACTGGAAATGC                         AATGGGACCACTGAGGAGGTGAAGAAGATTGTTACTACTTTAAATGAAGCT
genomic: CGAAAAAAATCATGGGCAGAAAATTCTTCGTCGGTGGCAACTGGAAATGCgtatgtttca ... tttgttgcagAATGGGACCACTGAGGAGGTGAAGAAGATTGTTACTACTTTAAATGAAGCT
EST: gi|7146583|gb|AW508505.1|AW508505
EST:     TCATGGGCAGAAAATTCTTCGTCGGTGGCAACTGGAAATGC                         AATGGGACCACTGAGGAGGTGAAGAAGATTGTTACTACTTTAAATGAAGCT
genomic: TCATGGGCAGAAAATTCTTCGTCGGTGGCAACTGGAAATGCgtatgtttca ... tttgttgcagAATGGGACCACTGAGGAGGTGAAGAAGATTGTTACTACTTTAAATGAAGCT
EST: gi|192300263|gb|FG987840.1|FG987840
EST:     CGNNNNNNNTCATGGGCAGAAAATTCTTCGTCGGTGGCAACTGGAAATGC                         AATGGGACCACTGAGGAGGTGAAGAAGATTGTTACTACTTTAAATGAAGCT
genomic: CGAAAAAAATCATGGGCAGAAAATTCTTCGTCGGTGGCAACTGGAAATGCgtatgtttca ... tttgttgcagAATGGGACCACTGAGGAGGTGAAGAAGATTGTTACTACTTTAAATGAAGCT
EST: gi|37997347|gb|CF808936.1|CF808936
EST:     CGNNNNNNNTCATGGGCAGAAAATTCTTCGTCGGTGGCAACTGGAAATGC                         AATGGGACCACTGAGGAGGTGAAGAAGATTGTTACTACTTTAAATGAAGCT
genomic: CGAAAAAAATCATGGGCAGAAAATTCTTCGTCGGTGGCAACTGGAAATGCgtatgtttca ... tttgttgcagAATGGGACCACTGAGGAGGTGAAGAAGATTGTTACTACTTTAAATGAAGCT
EST: gi|9986087|gb|BE660195.1|BE660195
EST:     CGNNNNNNNTCATGGGCAGAAAATTCTTCGTCGGTGGCAACTGGAAATGC                         AATGGGACCACTGAGGAGGTGAAGAAGATTGTTACTACTTTAAATGAAGCT
genomic: CGAAAAAAATCATGGGCAGAAAATTCTTCGTCGGTGGCAACTGGAAATGCgtatgtttca ... tttgttgcagAATGGGACCACTGAGGAGGTGAAGAAGATTGTTACTACTTTAAATGAAGCT
EST: gi|151409950|gb|EV279758.1|EV279758
EST:     CGNNNNNNNTCCTGGGCAGAAAATTCTTCGTCGGTGGCAACTGGAAATGC                         AATGGGACCACTGAGGAGGTGAAGAAGATTGTTACTACTTTAAATGAAGCT
genomic: CGAAAAAAATCATGGGCAGAAAATTCTTCGTCGGTGGCAACTGGAAATGCgtatgtttca ... tttgttgcagAATGGGACCACTGAGGAGGTGAAGAAGATTGTTACTACTTTAAATGAAGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaattcctaagtgattcatcggcggaactgatgctttgaattgattttgttgcagAATGGGACCACTGAGGAGGTGAAGAAGATTGTTACTACTTTAAATGAAGCTAAAGTCCCTGGAGAAGATGTTGTAG
                                            ttttgtt  CT-rich tract
                                  tttgaattgatttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gacatattgtggaaatagctaattgttaaatcaaccggtgttctgaaattcctaagtgattcatcggcggaactgatgctttgaattgattttgttgcagAATGGGACCACTGAGGAGGTGAAGAAGATTGTTACTACTTTAAATGAAGCTAAAGTCCCTGGAGAAGATGTTGTAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - -atcaacc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctgatgc