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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGGAGACTTGCACCCAGCTTTATGGGGTGCTAAAGTGGGAAATAGCTGGAGAACTACCAATGACATTAATGATTCATGGGAAAGgtgaacattattcatttaatttgttgattcaaatggagaaaaattctgttgccactatcatgtgtctgttactaactactcctattcaaataactttttt...

Basic information

species Glycine max
transcript GLYMA09G40990.1
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA09G40990.1 (Glycine max), 5'ss of exon 9
lower sequence: Vv10s0071g01100.t01 (Vitis vinifera), 5'ss of exon 9
GGGAGACTTGCACCCAGCTTTATGGGGTGCTAAAGTGGGAAATAGCTGGAGAACTACCAATGACATTAATGATTCATGGGAAAGgtgaacattattcatttaatttgttgattcaaatggagaaaaattctgttgccactatcatgtgtctgttactaactactcctattcaaataactttttt
||||||  |||| |||||| |||||||| |||| || |||||||||||||||||||| |||||||||   ||| ||||||| ||||  | ||  |    |    ||||| | |  |     ||  | |   |    || ||      ||   ||   || |  | ||  | |   |        
GGGAGATATGCATCCAGCTCTATGGGGTTCTAAGGTAGGAAATAGCTGGAGAACTACTAATGACATTGCAGATACATGGGACAGgtagaaatcttgtgct---cttgttaagtttatatatgattattgaaggcaacagtagagctggttcatt-tcaattgtttct-ctaatgcag-------
















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|208322312|gb|GE121681.1|GE121681
EST:     GATTCATGGGAAAG                         CATGATTTCAAGGGCAGACACGAATGAAGTTTATGCAGAGTATGCAAGACC
genomic: GATTCATGGGAAAGgtgaacatta ... tctttggcagCATGATTTCAAGGGCAGACATGAATGAAGTTTATGCAGAGTATGCAAGACC
EST: gi|208093244|gb|GD893543.1|GD893543
EST:     GTGGGAAATAGCTGGAGAACTACCAATGACATTAATGATTCATGGGAAAG                         CATGATTTCAAGGGCAGACATGAATGAAGTTTATGCAGAGTATGCAAGACC
genomic: GTGGGAAATAGCTGGAGAACTACCAATGACATTAATGATTCATGGGAAAGgtgaacatta ... tctttggcagCATGATTTCAAGGGCAGACATGAATGAAGTTTATGCAGAGTATGCAAGACC
EST: gi|207838375|gb|GD811129.1|GD811129
EST:     GTGGGAAATAGCTGGAGAACTACCAATGACATTAATGATTCATGGGAAAG                         CATGATTTCAAGGGCAGACATGAATGAAGTTTATGCAGAGTATGCAAGACC
genomic: GTGGGAAATAGCTGGAGAACTACCAATGACATTAATGATTCATGGGAAAGgtgaacatta ... tctttggcagCATGATTTCAAGGGCAGACATGAATGAAGTTTATGCAGAGTATGCAAGACC
EST: gi|193327671|gb|FK295036.1|FK295036
EST:     GTGGGAAATAGCTGGAGAACTACCAATGACATTAATGATTCATGGGAAAG                         CATGATTTCAAGGGCAGACATGAATGAAGTTTATGCAGAGTATGCAAGACC
genomic: GTGGGAAATAGCTGGAGAACTACCAATGACATTAATGATTCATGGGAAAGgtgaacatta ... tctttggcagCATGATTTCAAGGGCAGACATGAATGAAGTTTATGCAGAGTATGCAAGACC
EST: gi|208090698|gb|GD889625.1|GD889625
EST:     GTGGGAAATAGCTGGNGAACTACCAATGACATTAATGATTCATGGGAAAG                         CATGATTTCAAGGGCAGACATGAATGAAGTTTATGCAGAGTATGCAAGACC
genomic: GTGGGAAATAGCTGGAGAACTACCAATGACATTAATGATTCATGGGAAAGgtgaacatta ... tctttggcagCATGATTTCAAGGGCAGACATGAATGAAGTTTATGCAGAGTATGCAAGACC
EST: gi|193437777|gb|FK399612.1|FK399612
EST:     GTGGGAAATAGCTGGAGAACTACCAATGACATTAATGATTCATGGGAAAG                         CATGATTTCAAGGGCAGACATGAATG
genomic: GTGGGAAATAGCTGGAGAACTACCAATGACATTAATGATTCATGGGAAAGgtgaacatta ... tctttggcagCATGATTTCAAGGGCAGACATGAATG
EST: gi|193685282|gb|FK625770.1|FK625770
EST:     GTGGGAAATAGCTGGAGAACTACCAATGACATTAATGATTCATGGGAAAG                         CATGGTTTCAAGGGCAGATATGAATGAAGTTTATGCAGAGTATGCAAGACC
genomic: GTGGGAAATAGCTGGAGAACTACCAATGACATTAATGATTCATGGGAAAGgtgaacatta ... tctttggcagCATGATTTCAAGGGCAGACATGAATGAAGTTTATGCAGAGTATGCAAGACC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGGAGACTTGCACCCAGCTTTATGGGGTGCTAAAGTGGGAAATAGCTGGAGAACTACCAATGACATTAATGATTCATGGGAAAGgtgaacattattcatttaatttgttgattcaaatggagaaaaattctgttgccactatcatgtgtctgttactaactactcctattcaaataactttttt

- - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - -  GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ggagaaaa