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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGGGCCCCCTGGCACAGGAAAAACAATGCTTGCAAAGGCTGTAGCAACTGAAGCTGGAGCAAATTTCATTAACATTTCAATGTCCAGCATTACTTCAAAGgtatcaatattgtaaattactttttttgttgtgtatttccttgtatgcttcagttacaagaaaaacatggttttgtttgttgcag

Basic information

species Glycine max
transcript GLYMA02G17410.1
intron # 17
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G17410.1 (Glycine max), 5'ss of exon 17
lower sequence: LOC_Os11g43970.1 (Oryza sativa), 5'ss of exon 22
TGGGCCCCCTGGCACAGGAAAAACAATGCTTGCAAAGGCTGTAGCAACTGAAGCTGGAGCAAATTTCATTAACATTTCAATGTCCAGCATTACTTCAAAGgtat--caatattgtaaattactttttttgttgtgtatttccttgtatgcttcagttacaagaaaaacatggttttgtttgttgcag
||| || ||||| || || ||||| |||||||| ||||| |||||||||||||| || || || ||||||||||| |||||||| |||||||| || |||||||      ||   || ||    ||  ||  |||||     |  ||||      | | |   |||   || ||||  |  || |||
TGGACCTCCTGGTACTGGGAAAACCATGCTTGCTAAGGCAGTAGCAACTGAAGCAGGTGCTAACTTCATTAACATATCAATGTCAAGCATTACATCGAAGgtatgatggcatccaaattttgcattaatgaggtgtacagtgtactatgtgattctcaaagctaaatgctgttttttctactttcag

upper sequence: GLYMA02G17410.1 (Glycine max), 5'ss of exon 17
lower sequence: LOC_Os03g22420.1 (Oryza sativa), 5'ss of exon 22
TGGGCCCCCTGGCACAGGAAAAACAATGCTTGCAAAGGCTGTAGCAACTGAAGCTGGAGCAAATTTCATTAACATTTCAATGTCCAGCATTACTTCAAAGgtatcaatattgtaaattactttttttgttgtgtatttccttgtatgcttcagttacaagaaaaacatggt-tttgtttgttgcag
||| || ||||| |||||||| ||||||||||| || ||||| || || || ||||| || |||||||| || || |||||||| |||||  ||||||||||||   | |  ||||| | |  | ||  |   |  ||   | | ||| |      ||    |||||| || |    ||    |||
TGGCCCGCCTGGTACAGGAAAGACAATGCTTGCCAAAGCTGTGGCTACAGAGGCTGGTGCGAATTTCATAAATATATCAATGTCGAGCATCTCTTCAAAGgtat---tttactaaatgattgctattagtccatggttttgtttttgcattttgggcatctgaaacattgtgtaccattaccacag

upper sequence: GLYMA02G17410.1 (Glycine max), 5'ss of exon 17
lower sequence: LOC_Os07g47530.2 (Oryza sativa), 5'ss of exon 22
TGGGCCCCCTGGCACAGGAAAAACAATGCTTGCAAAGGCTGTAGCAACTGAAGCTGGAGCAAATTTCATTAACATTTCAATGTCCAGCATTACTTCAAAGgtatcaatattgtaaattact------ttttttgttgtgtatttccttgtatgcttcagttacaagaaaaacatggttttgtttgttgcag
||| || ||||| || || || || |||||||| || ||||| ||||| || ||||| || ||||| || ||||| |||||||| || ||| |||||||||||      || || |    |      ||     ||||  |  || ||| || || |  || |     | |  || || ||   |      
TGGCCCACCTGGTACGGGGAAGACCATGCTTGCTAAAGCTGTTGCAACAGAGGCTGGCGCCAATTTTATCAACATATCAATGTCTAGTATTGCTTCAAAGgtactccctttatagagctatgcagagttccagattgttcacatc-ttgaatactccttttgctg---atatctgattctgacag------

upper sequence: GLYMA02G17410.1 (Glycine max), 5'ss of exon 17
lower sequence: GRMZM2G435582_T01 (Zea mays), 5'ss of exon 2
TGGGCCCCCTGGCACAGGAAAAACAATGCTTGCAAAGGCTGTAGCAACTGAAGCTGGAGCAAATTTCATTAACATTTCAATGTCCAGCATTACTTCAAAGgtatcaatattgtaaattactttttttgttgtgtatttccttgtatgcttcagttacaagaaaaacatggttttgtttg-ttgcag
 || || |||||||| |||||||| |||||||| || || |||||||||||||| || || |||||||| || || |||||||| |||||||| || ||||||| | |    | |  || |       |  ||   |||  |   ||  |||     | |  || ||  | ||||||   || |||
CGGACCTCCTGGCACTGGAAAAACTATGCTTGCCAAAGCAGTAGCAACTGAAGCAGGCGCTAATTTCATCAATATATCAATGTCGAGCATTACATCTAAGgtattatt----tcacctaatgggcaactgatgagattcactac-tgtctca-----aggctaaccagtggtttgttaactttcag

upper sequence: GLYMA02G17410.1 (Glycine max), 5'ss of exon 17
lower sequence: GRMZM2G354532_T01 (Zea mays), 5'ss of exon 1
TGGGCCCCCTGGCACAGGAAAAACAATGCTTGCAAAGGCTGTAGCAACTGAAGCTGGAGCAAATTTCATTAACATTTCAATGTCCAGCATTACTTCAAAGgtatcaatattgtaaattactttttttgttgtgtatttccttgtatgcttcagttacaagaaaaacatggttttgtttgttgcag
 || || |||||||| |||||||| |||||||| || || |||||||||||||| || || |||||||| || || |||||||| |||||||| || ||||||| | |    | |  || |       |  ||   |||  |   ||  |||                                 
CGGACCTCCTGGCACTGGAAAAACTATGCTTGCCAAAGCAGTAGCAACTGAAGCAGGCGCTAATTTCATCAATATATCAATGTCGAGCATTACATCTAAGgtattatt----tcacctaatgggcaactgatgagattcactac-tgtctcaag-------------------------------

upper sequence: GLYMA02G17410.1 (Glycine max), 5'ss of exon 17
lower sequence: GRMZM2G126453_T02 (Zea mays), 5'ss of exon 7
TGGGCCCCCTGGCACAGGAAAAACAATGCTTGCAAAGGCTGTAGCAACTGAAGCTGGAGCAAATTTCATTAACATTTCAATGTCCAGCATTACTTCAAAGgtatcaatattgtaaattactttttttgttgtgtatttccttgtatgcttcagttacaagaaaaacatggttttgtttg-ttgcag
 || || |||||||| |||||||| |||||||| || || |||||||||||||| || || |||||||| || || |||||||| |||||||| || ||||||| | |    | |  || |       |  ||   |||  |   ||  |||     | |  || ||  | ||||||   || |||
CGGACCTCCTGGCACTGGAAAAACTATGCTTGCCAAAGCAGTAGCAACTGAAGCAGGCGCTAATTTCATCAATATATCAATGTCGAGCATTACATCGAAGgtattatt----tcacctaatgggcaactgatgagattcactac-tgtctca-----aggctaaccagtggtttgttaactttcag

upper sequence: GLYMA02G17410.1 (Glycine max), 5'ss of exon 17
lower sequence: GRMZM2G042074_T01 (Zea mays), 5'ss of exon 22
TGGGCCCCCTGGCACAGGAAAAACAATGCTTGCAAAGGCTGTAGCAACTGAAGCTGGAGCAAATTTCATTAACATTTCAATGTCCAGCATTACTTCAAAGgtatcaat--attgtaaattactttttttgttgtgtatttccttgtatgcttcagttacaagaaaaacatggttttgtttgttgcag
||| || ||||| || ||||| ||||||||||| |||||||| |||||||| ||||| || |||||||| ||||| || ||||| |||||  |||||||||||   ||  |||| | |   || | ||| ||| | | ||   | | |||     ||| |  |   | ||    |  |||   |   
TGGCCCACCTGGTACTGGAAAGACAATGCTTGCTAAGGCTGTGGCAACTGAGGCTGGTGCTAATTTCATAAACATATCGATGTCAAGCATCTCTTCAAAGgtacttatcaattggacaagcctctgttttttg-gcagttgagtatctgc----attatagcatctaaataacctattttccag---

upper sequence: GLYMA02G17410.1 (Glycine max), 5'ss of exon 17
lower sequence: GRMZM2G052403_T01 (Zea mays), 5'ss of exon 13
TGGGCCCCCTGGCACAGGAAAAACAATGCTTGCAAAGGCTGTAGCAACTGAAGCTGGAGCAAATTTCATTAACATTTCAATGTCCAGCATTACTTCAAAGgtatcaatattgtaaattactttttttgttgtgtatttccttgtatgcttcagttacaagaaaaacatggttttgtttgttgcag
 || || |||||||| || ||||| |||||||| || || |||||||||||||| || || |||||||| || || |||||||| |||||||| || ||||||| | |    | |  ||         |  ||   |||  | | ||  |||     ||  |     |||||   ||  || |||
CGGACCTCCTGGCACTGGGAAAACTATGCTTGCCAAAGCAGTAGCAACTGAAGCAGGTGCTAATTTCATCAATATATCAATGTCGAGCATTACGTCGAAGgtattatt----tgacctagcgggcaactgatgagattcact-tgtgtctcaagcctaaccag----tggttcgtttactttcag

upper sequence: GLYMA02G17410.1 (Glycine max), 5'ss of exon 17
lower sequence: GRMZM2G157621_T03 (Zea mays), 5'ss of exon 22
TGGGCCCCCTGGCACAGGAAAAACAATGCTTGCAAAGGCTGTAGCAACTGAAGCTGGAGCAAATTTCATTAACATTTCAATGTCCAGCATTACTTCAAAGgtatcaatattgtaaattactttttttgttgtgtatttccttgtatgcttcagttacaagaaaaacatggttttgt--ttgttgcag
||| || |||||||| || || || |||||||| || ||||| ||||| || ||||| || ||||| || ||||| |||||||| |||||| |||||||||||    |         ||||  |   |||   |      ||| |    | | |     |   |         |||   | |  |||
TGGTCCACCTGGCACCGGTAAGACCATGCTTGCCAAAGCTGTTGCAACAGAGGCTGGTGCTAATTTTATCAACATATCAATGTCAAGCATTGCTTCAAAGgtacttgtgcaacgttatactcatcaagtttgttcccgatttggagtacttattactttgctgatttcaaccctgtaactataacag

upper sequence: GLYMA02G17410.1 (Glycine max), 5'ss of exon 17
lower sequence: AT1G02890.1 (Arabidopsis thaliana), 5'ss of exon 21
TGGGCCCCCTGGCACAGGAAAAACAATGCTTGCAAAGGCTGTAGCAACTGAAGCTGGAGCAAATTTCATTAACATTTCAATGTCCAGCATTACTTCAAAGgtatcaatattgtaaattactttttttgttgtgtatttccttgtatgcttcagttacaagaaaaacatggttttgtttgttgcag
||| || ||||| || || || |||||||| ||||| ||||||||||| || ||||| ||||| || || || |||||||||||||||||||||||||||||||  ||    ||||    ||   |   | | || |   || | ||      ||| |    |     | ||| || |       
TGGACCGCCTGGTACGGGGAAGACAATGCTGGCAAAAGCTGTAGCAACCGAGGCTGGGGCAAACTTTATCAATATTTCAATGTCCAGCATTACTTCAAAGgtattgatcacttaaaacggttacctgactctatagtgttttctttga---gattagacttgacttgagatttcgtgtag-----

upper sequence: GLYMA02G17410.1 (Glycine max), 5'ss of exon 17
lower sequence: AT1G02890.2 (Arabidopsis thaliana), 5'ss of exon 21
TGGGCCCCCTGGCACAGGAAAAACAATGCTTGCAAAGGCTGTAGCAACTGAAGCTGGAGCAAATTTCATTAACATTTCAATGTCCAGCATTACTTCAAAGgtatcaatattgtaaattactttttttgttgtgta---tttccttgtatgcttcagtt-acaagaaaaa-catggttttgtttgttgcag----------
||| || ||||| || || || |||||||| ||||| ||||||||||| || ||||| ||||| || || || |||||||||||||||||||||||||||||||  ||    ||||    ||   |   | | ||   ||| |||  |   |  | || ||  || |   | ||   | ||||| ||  |          
TGGACCGCCTGGTACGGGGAAGACAATGCTGGCAAAAGCTGTAGCAACCGAGGCTGGGGCAAACTTTATCAATATTTCAATGTCCAGCATTACTTCAAAGgtattgatcacttaaaacggttacctgactctatagtgttttctttgagattagacttgacttgagatttcgtgtagtggtttggtgagggagagaagta

upper sequence: GLYMA02G17410.1 (Glycine max), 5'ss of exon 17
lower sequence: AT4G02480.1 (Arabidopsis thaliana), 5'ss of exon 21
TGGGCCCCCTGGCACAGGAAAAACAATGCTTGCAAAGGCTGTAGCAACTGAAGCTGGAGCAAATTTCATTAACATTTCAATGTCCAGCATTACTTCAAAGgtatcaatattgtaaattacttt--ttttgttgtgtatttccttgta-tgcttcagttacaagaaaaacatggttttgtttgttgcag
||| || ||||| || ||||| || ||||| ||||| || ||||||||||| ||||| ||||||||||| || || |||||||||||||||||||| ||||||  | | |  |||| |  | |  |||  || | |  || ||| || || ||    |  |  |   |||     |  ||||  |   
TGGACCTCCTGGTACTGGAAAGACGATGCTGGCAAAAGCAGTAGCAACTGAGGCTGGCGCAAATTTCATCAATATCTCAATGTCCAGCATTACTTCGAAGgta--actctcataaagtgatatgatttccttttatgctttcttttaatgattgtacttgaccatttacactaaatgctttgcag---

upper sequence: GLYMA02G17410.1 (Glycine max), 5'ss of exon 17
lower sequence: Vv07s0005g00200.t01 (Vitis vinifera), 5'ss of exon 21
TGGGCCCCCTGGCACAGGAAAAACAATGCTTGCAAAGGCTGTAGCAACTGAAGCTGGAGCAAATTTCATTAACATTTCAATGTCCAGCATTACTTCAAAGgtatcaatattgtaaattactttttttgttgtgtatttcc---ttgtatgcttcagttacaagaaa---aacatggttttgtttgttgcag
|||||| ||||| || ||||||||||||||||| ||||| || |||||||| || || |||||||| || ||||| |||||||| || || ||||||||||||  ||||| ||  || |   |  |   | || |  ||    ||| | |  |   ||  || | |    ||||  |  | ||  ||||||
TGGGCCTCCTGGGACTGGAAAAACAATGCTTGCGAAGGCGGTTGCAACTGAGGCAGGTGCAAATTTTATCAACATATCAATGTCTAGTATCACTTCAAAGgta--aatat-gtgcatcaaaatggtgactatgcagctctcttttgcaagtcttgttttgaaaatatttgacatcctgatattgcttgcag

upper sequence: GLYMA02G17410.1 (Glycine max), 5'ss of exon 17
lower sequence: EFJ31084 (Selaginella moellendorffii), 5'ss of exon 9
TGGGCCCCCTGGCACAGGAAAAACAATGCTTGCAAAGGCTGTAGCAACTGAAGCTGGAGCAAATTTCATTAACATTTCAATGTCCAGCATTACTTCAAAGgtatcaatattgtaaattactttttttgttgtgtatttccttgtatgcttcagttacaagaaaaacatggttttgtttgttgcag
||| || || || || || || || |||||||| ||||| || || || || ||||| ||||||||||| || |||||||||||||  ||| | || || |||   |  |   |  | |   | ||        | ||    || | |||   |  ||                           
TGGTCCTCCAGGAACTGGTAAGACCATGCTTGCTAAGGCGGTTGCTACAGAGGCTGGTGCAAATTTCATCAATATTTCAATGTCCACAATTGCATCTAAAgtaagcacttaccacgtgatagtgttca------agtttaccgttttctttcttcgcag--------------------------

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGGGCCCCCTGGCACAGGAAAAACAATGCTTGCAAAGGCTGTAGCAACTGAAGCTGGAGCAAATTTCATTAACATTTCAATGTCCAGCATTACTTCAAAGgtatcaatattgtaaattactttttttgttgtgtatttccttgtatgcttcagttacaagaaaaacatggttttgtttgttgcag

- - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCA