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'   		19  
 5'  3'   		20  
 5'  3'   
21  
 5'  3'   		22  
 5'  3'   		23  
 5'  3'   		24  
 5'  3'   		25  
 5'  3'   		26  
 5'  3'   		27  
 5'  3'   		28  
 5'  3'   		29  
 5'  3'   		30  
 5'  3'   		31  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGGAGAGATGTTTATGGTGCTTGGGAGCAATATCTTGGTTTGGAGCATACTGATAATGCTCCTAAAAGATCATATGCTGTTAACCAGgtttgtaactttgcctgcaatagctgatttttatcaagtacattttggtcttttaattgttttatggttgtccactattctggtaatactgggttttaattttgaggttgagagaacttgttttattacaccattccaaattacatgcgttttgtttcag

Basic information

species Glycine max
transcript GLYMA02G43930.1
intron # 31
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G43930.1 (Glycine max), 5'ss of exon 31
lower sequence: LOC_Os11g36470.1 (Oryza sativa), 5'ss of exon 27
AGGAGAGATGTTTATGGTGCTTGGGAGCAATATCTTGGTTTGGAGCATACTGATAATGCTCCTAAAAGATCATATGCTGTTAACCAGgtttgtaactttgcctgcaatagctgatttttatcaagtacattttggtcttttaattgttttatggttgtccactattctggtaat--actgggttttaattttgaggttgagagaacttgttttattacaccattccaaattacatgcgttttgtttcag
||||||||||| ||||| || |||||||| |||||||||||||||||| |||||| ||| || |||||  | ||  | |  || ||||| ||   ||  | |||   | |   | || |     |  |||   |   | ||     | |||   ||  |   |||||||  | |   || ||   ||  | |                                                         
AGGAGAGATGTCTATGGAGCCTGGGAGCAGTATCTTGGTTTGGAGCATGCTGATACTGCACCAAAAAGGGCCTACACAGCCAATCAGgtatgctgct--gtctg--gttgtgaacttgtgaagcgagcatagcgaattcttgtgcctgttacttttacct-ttattctgtcactcggcttgggcatatctat---------------------------------------------------------

upper sequence: GLYMA02G43930.1 (Glycine max), 5'ss of exon 31
lower sequence: LOC_Os12g30540.1 (Oryza sativa), 5'ss of exon 31
AGGAGAGATGTTTATGGTGCTTGGGAGCAATATCTTGGTTTGGAGCATACTGATAATGCTCCTAAAAGATCATATGCTGTTAACCAGgtttgtaactttgcctgcaatagctgatttttatcaagtacattttggtcttttaattgttttatggttgtccactattctggtaatactgggttttaattttgaggttgagagaacttgttttattacaccattccaaattacatgcgttttgtttcag
||||||||||||||||| |||||||| ||||| ||||| ||||| |||||||| |   | || ||||| || ||| | |  || |||||    |   ||| ||  ||||  || |||||     ||||| ||         || ||    | |       | || ||||        | |||| |  ||| ||  ||  |  |  |||||  ||                                 
AGGAGAGATGTTTATGGAGCTTGGGAACAATACCTTGGCTTGGAACATACTGACACAACACCAAAAAGGTCTTATACAGCCAATCAGgtaatcagtgttggct--aataa-tggtttttgc---gtacaattcaa------aactggc--aaga------aataatctga-------gtgtttaagatttaagagtgtaaatatctgtttattt---------------------------------

upper sequence: GLYMA02G43930.1 (Glycine max), 5'ss of exon 31
lower sequence: GRMZM2G303655_T01 (Zea mays), 5'ss of exon 20
AGGAGAGATGTTTATGGTGCTTGGGAGCAATATCTTGGTTTGGAGCATACTGATAATGCTCCTAAAAGATCATATGCTGTTAACCAGgtttgtaactttgcctgcaatagctgatttttatcaagtacat-tttggtcttttaattgttttatggttgtccactattctggtaatactgggttttaattttgaggttgagagaacttgttttattacaccattccaaattacatgcgttttgtttcag
 |||||||||| |||||||||||||| ||||| ||||| |||||||| |||||||   |  | ||| | || ||  |    || ||||| || ||   |     |  | | |||  |   | ||||| || |||| | | |  ||    ||||   ||     | ||   ||  | || |  |||| | | |                                                        
CGGAGAGATGTATATGGTGCTTGGGAACAATACCTTGGCTTGGAGCACACTGATACAACATCGAAACGGTCTTACACATCCAATCAGgtatgcaatgctatt--ctgttg-tgaaatgagtgaagtagatgtttgatgtgtccatgaacttattcatggtt-ttgtttgtgtccttctag-ctttactctcg--------------------------------------------------------

upper sequence: GLYMA02G43930.1 (Glycine max), 5'ss of exon 31
lower sequence: GRMZM2G014805_T02 (Zea mays), 5'ss of exon 12
AGGAGAGATGTTTATGGTGCTTGGGAGCAATATCTTGGTTTGGAGCATACTGATAATGCTCCTAAAAGATCATATGCTGTTAACCAGgtttgtaactttgcctgcaatagctgatttttatcaagtacattttggtcttttaattgttttatggttgtccactattctggtaatactgggttttaattttgaggttgagagaacttgttttattacaccattccaaattacatgcgttttgtttcag
||||||||||| |||||||||||||| ||||| ||||| |||||||| || ||||   |  | ||||| || ||  | |  || |||||  | ||       ||| |||      | || | || |        ||    ||| ||||  | | ||||  |  ||| ||| | | || | || || |    || | |||   |  |                                         
AGGAGAGATGTATATGGTGCTTGGGAACAATACCTTGGCTTGGAGCACACCGATACAACATCGAAAAGGTCTTACACAGCCAATCAGgtaggcaa-------tgctatattc---tgttgtaaaatg------agtgaaataaatgttcgacg-ttgt--aagattgtggaagtgcttgattgtattgcatagatggagcacatat-----------------------------------------

upper sequence: GLYMA02G43930.1 (Glycine max), 5'ss of exon 31
lower sequence: Vv06s0009g00960.t01 (Vitis vinifera), 5'ss of exon 31
AGGAGAGATGTTTATGGTGCTTGGGAGCAATATCTTGGTTTGGAGCATACTGATAATGCTCCTAAAAGATCATATGCTGTTAACCAGgtttgtaactttgcctgcaatagctgat-ttttatcaagtacattttggtcttttaatt--gttttatggttgtccactattctggtaatactgggttttaattttgaggttgagagaacttgttttattacaccattccaaattacatgcgttttgtttcag
|| |||||||||||||||||||||||||| ||||||||  | |||||| |||| | ||||||||||||  | ||||| | ||| ||||| |||  |||     | | || ||  | |  | |  || | ||  | |  | | ||||   | ||   ||||||  | |  |  | |                                                                           
AGAAGAGATGTTTATGGTGCTTGGGAGCAGTATCTTGGACTAGAGCATTCTGACACTGCTCCTAAAAGGGCTTATGCAGCTAATCAGgtatgttgcttc-ttggtattaacttctatcctgtttag-atatgctagattgtaaattccatattgatgttgtcacccaaccatgcag--------------------------------------------------------------------------

upper sequence: GLYMA02G43930.1 (Glycine max), 5'ss of exon 31
lower sequence: EFJ19227 (Selaginella moellendorffii), 5'ss of exon 28
AGGAGAGATGTTTATGGTGCTTGGGAGCAATATCTTGGTTTGGAGCATACTGATAATGCTCCTAAAAGATCATATGCTGTTAACCAGgtttgtaactttgcctgcaatagctgatttttatcaagtacattttggtcttttaattgttttatggttgtccactattctggtaatactgggttttaattttgaggttgagagaacttgttttattacaccattccaaattacatgcgttttgtttcag
| | | ||||| ||||||||||||||||| || || |||||||||||  | || |  || || ||  | ||  ||  || ||  |||||  |  || | ||   |     ||  | | ||||   |         ||     |||  || | | ||||  | |||||  |                                                                             
AAGCGGGATGTCTATGGTGCTTGGGAGCACTACCTGGGTTTGGAGCACTCGGACACAGCACCAAAGCGTTCTCATCTTGCTAGTCAGgtaagatacatagcactctc---ctcttctatatcggatt--------tccacggattacttaacgattgt--attattccag-----------------------------------------------------------------------------

upper sequence: GLYMA02G43930.1 (Glycine max), 5'ss of exon 31
lower sequence: EFJ13603 (Selaginella moellendorffii), 5'ss of exon 27
AGGAGAGATGTTTATGGTGCTTGGGAGCAATATCTTGGTTTGGAGCATACTGATAATGCTCCTAAAAGATCATATGCTGTTAACCAGgtttgtaactttgcctgcaatagctgatttttatcaagtacattttggtcttttaattgttttatggttgtccactattctggtaatactgggttttaattttgaggttgagagaacttgttttattacaccattccaaattacatgcgttttgtttcag
| | | ||||| ||||||||||||||||| || || |||||||||||  | || |  || || ||  | ||  ||  || ||  |||||  |  || | ||   |     ||  | | ||||   |       | |   ||||   || ||| ||  ||||                                                                                      
AAGCGGGATGTCTATGGTGCTTGGGAGCACTACCTGGGTTTGGAGCACTCGGACACAGCACCAAAGCGTTCTCATCTTGCTAGTCAGgtaagatacatagcactctc---ctcttctatatcggatttccacggattgcttaacgattgtattgt--tccag-------------------------------------------------------------------------------------

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|193542686|gb|FK501067.1|FK501067
EST:     GTTTGGAGCATACTGATAATGCTCCTAAAAGATCATATGCTGTTAACCAG                         AATCGCCATACTTTCGAGAAGCCAGTAAAGATTTATAATTAAGGAAACTGG
genomic: GTTTGGAGCATACTGATAATGCTCCTAAAAGATCATATGCTGTTAACCAGgtttgtaact ... tttgtttcagAATCGCCATACTTTCGAGAAGCCAGTAAAGATTTATAATTAAGGAAACTGG
EST: gi|11687460|gb|BF595136.1|BF595136
EST:     GTTTGGAGCATACTGATAATGCTCCTAAAAGATCATATGCTGTTAACCAG                         AATCGCCATACTTTCGAGAAGCCAGTAAAGATTTATAATTAAGGAAACTGG
genomic: GTTTGGAGCATACTGATAATGCTCCTAAAAGATCATATGCTGTTAACCAGgtttgtaact ... tttgtttcagAATCGCCATACTTTCGAGAAGCCAGTAAAGATTTATAATTAAGGAAACTGG
EST: gi|193604317|gb|FK558946.1|FK558946
EST:     GTTTGGAGCATACTGATAATGCTCCTAAAAGATCATATGCTGTTAACCAG                         AATCGCCATACTTTCGAGAAGCCAGTAAAGATTTATAATTAAGGAAACTGG
genomic: GTTTGGAGCATACTGATAATGCTCCTAAAAGATCATATGCTGTTAACCAGgtttgtaact ... tttgtttcagAATCGCCATACTTTCGAGAAGCCAGTAAAGATTTATAATTAAGGAAACTGG
EST: gi|19052805|gb|BM731480.1|BM731480
EST:     GTTTGGAGCATACTGATAATGCTCCTAAAAGATCATATGCTGTTAACCAG                         AATCGCCATACTTTCGAGAAGCCAGTAAAGATTTATAATTAAGGAAACTGG
genomic: GTTTGGAGCATACTGATAATGCTCCTAAAAGATCATATGCTGTTAACCAGgtttgtaact ... tttgtttcagAATCGCCATACTTTCGAGAAGCCAGTAAAGATTTATAATTAAGGAAACTGG
EST: gi|208212064|gb|GE008743.1|GE008743
EST:     TACTGACAATGCTCCTAAAAGATCATATGCTGTTAACCAG                         AATCGCCATACTTTCGAGAAGCCAGTAAAGATTTATAATTAAGGAAACTGG
genomic: TACTGATAATGCTCCTAAAAGATCATATGCTGTTAACCAGgtttgtaact ... tttgtttcagAATCGCCATACTTTCGAGAAGCCAGTAAAGATTTATAATTAAGGAAACTGG
EST: gi|193383565|gb|FK349122.1|FK349122
EST:     TGGAGTCATTACTTGATAATGCTCCTAAAAGATCATATGCTGTTAACCAG                         AATCGCCATACTTTCGAGAAGCCAGTAAAGATTTATAATTAAGGAAACTGG
genomic: TGGAG-CA-TAC-TGATAATGCTCCTAAAAGATCATATGCTGTTAACCAGgtttgtaact ... tttgtttcagAATCGCCATACTTTCGAGAAGCCAGTAAAGATTTATAATTAAGGAAACTGG
EST: gi|10231860|gb|BE800748.1|BE800748
EST:     GTTTGGAGCATACTGATAATGCTCCTAAAAGATCATATGCTGTTAACCAG                         AATCGCCATACTTTCGAGAAGCCAGTAAAGATTTATAATTAAGGAAACTGG
genomic: GTTTGGAGCATACTGATAATGCTCCTAAAAGATCATATGCTGTTAACCAGgtttgtaact ... tttgtttcagAATCGCCATACTTTCGAGAAGCCAGTAAAGATTTATAATTAAGGAAACTGG
EST: gi|209703722|gb|BW665020.1|BW665020
EST:     GTTTGGAGCATACTGATAATGCTCCTAAAAGATCATATGCTGTTAACCAG                         AATCGCCATACTTTCGAGAAGCCAGTAAAGATTTATAATTAAGGAAACTGG
genomic: GTTTGGAGCATACTGATAATGCTCCTAAAAGATCATATGCTGTTAACCAGgtttgtaact ... tttgtttcagAATCGCCATACTTTCGAGAAGCCAGTAAAGATTTATAATTAAGGAAACTGG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AGGAGAGATGTTTATGGTGCTTGGGAGCAATATCTTGGTTTGGAGCATACTGATAATGCTCCTAAAAGATCATATGCTGTTAACCAGgtttgtaactttgcctgcaatagctgatttttatcaagtacattttggtcttttaattgttttatggttgtccactattctggtaatactgggttttaattttgaggttgagagaacttgttttattacaccattccaaattacatgcgttttgtttcag

- - - - - - - - - - - - - - - - - - -  TTGGAG
- - - - - - - - - - - - - - - - - - - -  GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGTT