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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AACTGCCGAAGTTTCAAAGACTTTCAATGAAAAAATTAGAAAGTACTGTGACATGACACTCTTATCATGTGCCTATGCTGGAACTGGAAATGTTCTCAAGgtacaatcttgtgataaactggttatgaattttttttaaaaaatgaaacttctgctgcacctttctatgtttataattgctgattgcggatgcatctttttattttaatattttgctggtgcttctttcttgcag

Basic information

species Glycine max
transcript GLYMA06G44340.1
intron # 18
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA06G44340.1 (Glycine max), 5'ss of exon 18
lower sequence: AT4G28470.1 (Arabidopsis thaliana), 5'ss of exon 16
AACTGCCGAAGTTTCAAAGACTTTCAATGAAAAAATTAGAAAGTACTGTGACATGACACTCTTATCATGTGCCTATGCTGGAACTGGAAATGTTCTCAAGgtacaatcttgtgataaactggttatgaattttttttaaaaaatgaaacttctgctgcacctttctatgtttataattgctgattgcggatgcatctttttattttaatattttgctggtgcttctttcttgcag
 ||||| |||||||||||||| |||||||| ||||| |||||||| ||||| ||||||||  | |||||||| ||||||||||| || ||||| || ||||||      | |||| || ||  |   | |  ||       ||| | | |  |    |  ||||||| |||||   |  ||   | |  |    ||    ||||                               
TACTGCAGAAGTTTCAAAGACGTTCAATGAGAAAATCAGAAAGTATTGTGATATGACACTTCTTTCATGTGCATATGCTGGAACCGGGAATGTCCTTAAGgta------tctgatcaagtg--tgctagtggtt------gaattagattatt--cacttctttcta-gtttagtctgact--cttcaaactattcaaactattcag----------------------------

upper sequence: GLYMA06G44340.1 (Glycine max), 5'ss of exon 18
lower sequence: AT2G20580.1 (Arabidopsis thaliana), 5'ss of exon 16
AACTGCCGAAGTTTCAAAGACTTTCAATGAAAAAATTAGAAAGTACTGTGACATGACACTCTTATCATGTGCCTATGCTGGAACTGGAAATGTTCTCAAGgtacaatcttgtgataaactggttatgaattttttttaaaaaatgaaacttctgctgcacctttctatgtttataattgctgattgcggatgcatctttttattttaatattttgctggtgcttctttcttgcag
 || || |||||||| ||||| |||||||| || ||||||||||| ||||| ||||||||  | || ||||| |||||||||||||||||||| || ||||||   |  |    |   |||||  |  | |    | |   | |     ||  | ||     | |||   ||||| || | |                                                     
TACAGCTGAAGTTTCGAAGACCTTCAATGAGAAGATTAGAAAGTATTGTGATATGACACTTCTTTCTTGTGCTTATGCTGGAACTGGAAATGTCCTAAAGgtatc-taatcaattgtgctggtggttgagtgacataattcattacttgtttagttgttgactcctac--ttatattttcag-----------------------------------------------------

upper sequence: GLYMA06G44340.1 (Glycine max), 5'ss of exon 18
lower sequence: Vv12s0028g03130.t01 (Vitis vinifera), 5'ss of exon 18
AACTGCCGAAGTTTCAAAGACTTTCAATGAAAAAATTAGAAAGTACTGTGACATGACACTCTTATCATGTGCCTATGCTGGAACTGGAAATGTTCTCAAGgtacaatcttgtgataaa---ctggttatgaattttttttaaaaaatgaaacttctg--ctgcacctttctatgtttataattgctgattgcggatgcatctttttattttaatattttgctggtgcttctttcttgcag
 ||||| ||||| |||||||| || ||||||||||| ||||| || || || |||||  |  | || ||||| |||||||||||||| ||||| ||||||||      ||    |  |   ||| | | || |  | ||  | |||||||    |    || |   ||||  | |||    ||  | |||||  |                                             
CACTGCTGAAGTGTCAAAGACATTTAATGAAAAAATAAGAAAATATTGCGATATGACGTTGCTTTCTTGTGCATATGCTGGAACTGGGAATGTGCTCAAGgttttgcattaaagttgattgctgttcaagattcctattccataaatgaagaggccaaccttcttttttcattctttgctttttttaattgcacag--------------------------------------------

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|7693027|gb|AW761125.1|AW761125
EST:     GGAAATGTTCTCAAG                         GTTCAAAATCTGTTGGGTCATTGTTCACAACATCTTGATAAAGGTGAAACT
genomic: GGAAATGTTCTCAAGgtacaatctt ... tttcttgcagGTTCAAAATCTGTTGGGTCATTGTTCACAACATCTTGATAAAGGTGAAACT
EST: gi|208200466|gb|GD995137.1|GD995137
EST:     CATGTGCCTATGCTGGAACTGGAAATGTTCTCAAG                         GTTCAAAATCTGTTGGGTCATTGTTCACAACATCTTGATAAAGGTGAAACT
genomic: CATGTGCCTATGCTGGAACTGGAAATGTTCTCAAGgtacaatctt ... tttcttgcagGTTCAAAATCTGTTGGGTCATTGTTCACAACATCTTGATAAAGGTGAAACT
EST: gi|193425219|gb|FK389906.1|FK389906
EST:     AATGTTCTCAAG                         GTTTCAAAATCTGTTGGGTCATTGTTCACAACATCTTGATAAAGGTGAAAC
genomic: AATGTTCTCAAGgtacaatctt ... tttcttgcagG-TTCAAAATCTGTTGGGTCATTGTTCACAACATCTTGATAAAGGTGAAAC
EST: gi|10847592|gb|BF070244.1|BF070244
EST:     ACATGACACTCTTATCATGTGCCTATGCTGGAACTGGAAATGTTCTCAAG                         GTTCAAAATCTGTTGGGTCATTGTTCACAACATCTTGATAAAGGTGAAACT
genomic: ACATGACACTCTTATCATGTGCCTATGCTGGAACTGGAAATGTTCTCAAGgtacaatctt ... tttcttgcagGTTCAAAATCTGTTGGGTCATTGTTCACAACATCTTGATAAAGGTGAAACT
EST: gi|22521874|gb|BU080685.1|BU080685
EST:     ACATGACACTCTTATCATGTGCCTATGCTGGAACTGGAAATGTTCTCAAG                         GTTCAAAATCTGTTGGGTCATTGTTCACAACATCTTGATAAAGGTGAAACT
genomic: ACATGACACTCTTATCATGTGCCTATGCTGGAACTGGAAATGTTCTCAAGgtacaatctt ... tttcttgcagGTTCAAAATCTGTTGGGTCATTGTTCACAACATCTTGATAAAGGTGAAACT
EST: gi|193437445|gb|FK401730.1|FK401730
EST:     AATGTTCTCAAG                         GTTCAAAATCTGTTGGGTCATTGTTCACAACATCTTGATAAAGGTGAAACT
genomic: AATGTTCTCAAGgtacaatctt ... tttcttgcagGTTCAAAATCTGTTGGGTCATTGTTCACAACATCTTGATAAAGGTGAAACT
EST: gi|193364114|gb|FK332636.1|FK332636
EST:     AATGTTCTCAAG                         GTTCAAAATACTAGTTGGGTCATTGTTCACAACATCTTGATAAAGGTGAAA
genomic: AATGTTCTCAAGgtacaatctt ... tttcttgcagGTTCAAAAT-CT-GTTGGGTCATTGTTCACAACATCTTGATAAAGGTGAAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AACTGCCGAAGTTTCAAAGACTTTCAATGAAAAAATTAGAAAGTACTGTGACATGACACTCTTATCATGTGCCTATGCTGGAACTGGAAATGTTCTCAAGgtacaatcttgtgataaactggttatgaattttttttaaaaaatgaaacttctgctgcacctttctatgtttataattgctgattgcggatgcatctttttattttaatattttgctggtgcttctttcttgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA