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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAGAAATTACATTGAGGATCTGCTAAAGAATATTAGAACACAAGTCTTGCTGAAGCTCATCAAACCATATACAAGGATCAGGATCCCTTTTATATCTAAGgtaattatgttcccactgctatcaaacaaattaaaggaatgcgaagagaaaatggtagagctaaagttgctgttactttttcatttgataataagatatatttgttaatttgaatagacatttacagttaatctaatactttttatatgtaataaaatccatcaatttgcag

Basic information

species Glycine max
transcript GLYMA05G14170.1
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G14170.1 (Glycine max), 5'ss of exon 10
lower sequence: Vv08s0040g00430.t01 (Vitis vinifera), 5'ss of exon 10
CAGAAATTACATTGAGGATCTGCTAAAGAATATTAGAACACAAGTCTTGCTGAAGCTCATCAAACCATATACAAGGATCAGGATCCCTTTTATATCTAAGgtaattatgttcccactgctatcaaacaaattaaaggaatgcgaagagaaaatggtagagctaaagttgctgttactttttcatttgataataagatatatttgttaatttgaatagacatttacagttaatctaatactttttatatgtaataaaatccatcaatttgcag
|||||||||||| ||||||||| |||| ||||||||||||||||| ||||| ||||||||||||||||| || || ||| | |||||||| ||||| ||||||   || | |    ||||          ||  ||     |             |   ||||   ||| | ||  | ||| ||||     ||   | | |   |   || |  |||                                                       
CAGAAATTACATCGAGGATCTGTTAAAAAATATTAGAACACAAGTGTTGCTCAAGCTCATCAAACCATACACGAGAATCCGTATCCCTTTCATATCAAAGgtagcaatttacttcatgctgc--------ttgtagttgctcttta-------cttcatgcta--cttgtttttgttcttttattttgggctagagtttttccttatgttagtttag-------------------------------------------------------
















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|58020463|gb|CX707205.1|CX707205
EST:     TGAAGCTCATCAAACCATATACAAGGATCAGGATCCCTTTTATATCTAAG                         GAACTTAATGTTCCTGAGCATGATGTTGAGCAGCTATTGGTGTCGCTGATT
genomic: TGAAGCTCATCAAACCATATACAAGGATCAGGATCCCTTTTATATCTAAGgtaattatgt ... caatttgcagGAACTTAATGTTCCTGAGCATGATGTTGAGCAGCTATTGGTGTCGCTGATT
EST: gi|8404263|gb|BE059897.1|BE059897
EST:     TGAAGCTCATCAAACCATATACAAGGATCAGGATCCCTTTTATATCTAAG                         GAACTTAATGTTCCTGAGCATGATGTTGAGCAGCTATTGGTGTCGCTGATT
genomic: TGAAGCTCATCAAACCATATACAAGGATCAGGATCCCTTTTATATCTAAGgtaattatgt ... caatttgcagGAACTTAATGTTCCTGAGCATGATGTTGAGCAGCTATTGGTGTCGCTGATT
EST: gi|254329996|gb|GR839549.1|GR839549
EST:     TGAAGCTCATCAAACCATATACAAGGATCAGGATCCCTTTTATATCTAAG                         GAACTTAATGTTCCTGAGCATGATGTTGAGCAGCTATTGGTGTCGCTGATT
genomic: TGAAGCTCATCAAACCATATACAAGGATCAGGATCCCTTTTATATCTAAGgtaattatgt ... caatttgcagGAACTTAATGTTCCTGAGCATGATGTTGAGCAGCTATTGGTGTCGCTGATT
EST: gi|254329997|gb|GR839550.1|GR839550
EST:     TGAAGCTCATCAAACCATATACAAGGATCAGGATCCCTTTTATATCTAAG                         GAACTTAATGTTCCTGAGCATGATGTTGAGCAGCTATTGGTGTCGCTGATT
genomic: TGAAGCTCATCAAACCATATACAAGGATCAGGATCCCTTTTATATCTAAGgtaattatgt ... caatttgcagGAACTTAATGTTCCTGAGCATGATGTTGAGCAGCTATTGGTGTCGCTGATT
EST: gi|9899182|gb|BE608080.1|BE608080
EST:     TGAAGCTCATCANACCATATACAAGGATCANGATCCCTTTTATATCTAAG                         GAACTTAATGTTCCTGAGCATGATGTTGAGCAGCTATGGGTGTCGCTGATT
genomic: TGAAGCTCATCAAACCATATACAAGGATCAGGATCCCTTTTATATCTAAGgtaattatgt ... caatttgcagGAACTTAATGTTCCTGAGCATGATGTTGAGCAGCTATTGGTGTCGCTGATT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CAGAAATTACATTGAGGATCTGCTAAAGAATATTAGAACACAAGTCTTGCTGAAGCTCATCAAACCATATACAAGGATCAGGATCCCTTTTATATCTAAGgtaattatgttcccactgctatcaaacaaattaaaggaatgcgaagagaaaatggtagagctaaagttgctgttactttttcatttgataataagatatatttgttaatttgaatagacatttacagttaatctaatactttttatatgtaataaaatccatcaatttgcag

- - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTCA