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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AATTGTCAGAGTTATTTTAGCAAAAGAAGATTTGGCACCTGATGTTGATTTTGAAGCAATAGCAAATATGACTGATGGATATTCAGGAAGTGACCTAAAGgttgtatttctatatatcttttacttcaattcttgatcactggggaagatgacatgaaatactcattgactcattgttatcttttgactgcag

Basic information

species Glycine max
transcript GLYMA02G17400.1
intron # 21
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G17400.1 (Glycine max), 5'ss of exon 21
lower sequence: LOC_Os11g43970.1 (Oryza sativa), 5'ss of exon 25
AATTGTCAGAGTTATTTTAGCAAAAGAAGATTTGGCACCTGATGTTGATTTTGAAGCAATAGCAAATATGACTGATGGATATTCAGGAAGTGACCTAAAGgttgtatttctatatatcttttacttcaat--tcttgatcactggggaagatgacatgaaatactcattgactcattgttatcttttgactgcag
 ||| | | ||| || || ||||| ||||| ||||| || | | ||||| | ||  |  | || | |||||| ||||||||||||||||||||||| |||||    ||  ||   ||    | |   |||        | | |||  | | |  ||   |||  ||| |||||   |  | |     |       
GATTCTGAAAGTAATATTGGCAAAGGAAGAGTTGGCTCCAGGTATTGATATGGATTCTCTTGCCACTATGACCGATGGATATTCAGGAAGTGACCTGAAGgtatgcttgataatgatgcgcttcccaaataacacaagtgattggaaatggttgcac--aattttcactgacttgcttgtgttcccag-------

upper sequence: GLYMA02G17400.1 (Glycine max), 5'ss of exon 21
lower sequence: GRMZM2G052403_T01 (Zea mays), 5'ss of exon 16
AATTGTCAGAGTTATTTTAGCAAAAGAAGATTTGGCACCTGATGTTGATTTTGAAGCAATAGCAAATATGACTGATGGATATTCAGGAAGTGACCTAAAGgttgtatttctatatatcttttacttcaattcttgatcactggggaagatgacatgaaatactcattgactcattgttatcttttgactgcag
|||| | | ||| ||||| |||||||||||  ||| | | ||||||||| | ||  || | || |||||||||||||| ||||||||||| ||||| |||||     ||        |||||||           ||  || |  | | |         |  ||| |||||   ||   ||            
AATTCTGAAAGTAATTTTGGCAAAAGAAGAGCTGGGATCGGATGTTGATCTCGACTCACTTGCCAATATGACTGATGGTTATTCAGGAAGCGACCTGAAGgt-acgcttg-------cttttac----gcatgcaattgctagaaacgctt-tgcattgttttcactgactttgtgccttcag----------

upper sequence: GLYMA02G17400.1 (Glycine max), 5'ss of exon 21
lower sequence: GRMZM2G126453_T01 (Zea mays), 5'ss of exon 20
AATTGTCAGAGTTATTTTAGCAAAAGAAGATTTGGCACCTGATGTTGATTTTGAAGCAATAGCAAATATGACTGATGGATATTCAGGAAGTGACCTAAAGgttgtatttctatatatcttttacttcaattcttgatcactggggaagatgacatgaaatactcattgactcattgttatcttttgactgcag
|||| | | ||| ||||| |||||||||||  ||| | ||||||||||| | ||  |  | || |||||||||||||| ||||||||||| ||||| |||||    |||        || ||||        |||||    |   ||            |  |||  | ||  | |||    |  |       
AATTCTAAAAGTAATTTTGGCAAAAGAAGAGCTGGGATCTGATGTTGATATGGACTCGCTTGCCAATATGACTGATGGTTATTCAGGAAGCGACCTGAAGgt-acgtttg-------ctcttacgcgtgccattgata---gaaaaaccctctgcatggttttcaccggct--tcgttgctctcag-------

upper sequence: GLYMA02G17400.1 (Glycine max), 5'ss of exon 21
lower sequence: GRMZM2G354532_T01 (Zea mays), 5'ss of exon 4
AATTGTCAGAGTTATTTTAGCAAAAGAAGATTTGGCACCTGATGTTGATTTTGAAGCAATAGCAAATATGACTGATGGATATTCAGGAAGTGACCTAAAGgt---tgtatttctatatat-cttttacttcaattcttgatcactggggaagatgacatgaaatactcattgactcattgttatcttttgactgcag----
|||| | | ||| ||||| |||||||||||  ||| | ||||||||||| | ||  |  | || |||||||||||||| ||||||||||| ||||| |||||   | |  |  ||    | |  ||  |  ||  | |   ||  |        | | |    | |||   || ||  ||| | |      |  ||     
AATTCTAAAAGTAATTTTGGCAAAAGAAGAGCTGGGATCTGATGTTGATATGGACTCGCTTGCCAATATGACTGATGGTTATTCAGGAAGCGACCTGAAGgtacgtttgctcttactcgtgccattgatagaaaccctctgcatggttttcaccggcttcgt-tgctctcagaatctgtgtgaccgcggcgcaccaccgag

upper sequence: GLYMA02G17400.1 (Glycine max), 5'ss of exon 21
lower sequence: GRMZM2G157621_T03 (Zea mays), 5'ss of exon 25
AATTGTCAGAGTTATTTTAGCAAAAGAAGATTTGGCACCTGATGTTGATTTTGAAGCAATAGCAAATATGACTGATGGATATTCAGGAAGTGACCTAAAGgttgtatttctat----atatcttttactt-caattcttgatcactggggaagatgacatgaaatactcattgactcattgttatcttttgactgcag
 ||| | || || ||  ||||||||||||||||||||  |||||| ||| | || ||  |||||||  |||| ||||| |||||||| ||||| || ||||| |   ||||||    |||| | || |||    |  ||  || ||        |     |  | ||  |||    ||                    
GATTCTTAGCGTGATACTAGCAAAAGAAGATTTGGCAGATGATGTAGATCTGGAGGCGTTAGCAAACCTGACAGATGGGTATTCAGGCAGTGATCTGAAGgtaggtattctattaagatatttctttcttatcctatttcctcgcttctttgtgttgttggcgacacctatttttgcag-------------------

upper sequence: GLYMA02G17400.1 (Glycine max), 5'ss of exon 21
lower sequence: AT4G02480.1 (Arabidopsis thaliana), 5'ss of exon 24
AATTGTCAGAGTTATTTTAGCAAAAGAAGATTTGGCACCTGATGTTGATTTTGAAGCAATAGCAAATATGACTGATGGATATTCAGGAAGTGACCTAAAGgttgtatttctatatatcttttacttcaattcttgatcactggggaagatgacatgaaatactcattgactcattgttatcttttgactgcag
 ||  | || |||||| |||||||||||||  | ||||| || || ||||| ||||| |||||||||||||| ||||| || |||||||||||| |||||||      | | |||| | ||  ||   | |||   || |  |  |          ||| |||||   ||  ||| ||   |||||  |||||
GATCTTGAGCGTTATTCTAGCAAAAGAAGAAATAGCACCAGACGTCGATTTAGAAGCTATAGCAAATATGACAGATGGGTACTCAGGAAGTGACTTAAAGgtctcgactttctataaccttccctctcaatctccttcccctgtaa----------aaaaactcacacacgtattctt---ttttggttgcag

upper sequence: GLYMA02G17400.1 (Glycine max), 5'ss of exon 21
lower sequence: AT1G02890.2 (Arabidopsis thaliana), 5'ss of exon 23
AATTGTCAGAGTTATTTTAGCAAAAGAAGATTTGGCACCTGATGTTGATTTTGAAGCAATAGCAAATATGACTGATGGATATTCAGGAAGTGACCTAAAGgttgtatttctatatatcttttacttcaattcttgatcactggggaag-atgacatgaaatactcattgactcattgttatcttttgactgcag
 ||  | || || ||||| || ||||||||  |||||   || || || || |||||||||||||||||||| ||||| || ||||| |||||| ||||||       ||| ||  |   |   | |||  |   |  ||||   |   ||  ||| ||| |  ||    || ||     | | | |  |||||
GATCTTGAGCGTGATTTTGGCGAAAGAAGAGATGGCAGAAGACGTAGACTTAGAAGCAATAGCAAATATGACAGATGGGTACTCAGGGAGTGACTTAAAGg-------tctgtaacttcctccatccaaagcacaa--actgaaaacccatttcataaaa-atccacattctaatcaaattgtctggtttgcag

upper sequence: GLYMA02G17400.1 (Glycine max), 5'ss of exon 21
lower sequence: Vv07s0005g00200.t01 (Vitis vinifera), 5'ss of exon 24
AATTGTCAGAGTTATTTTAGCAAAAGAAGATTTGGCACCTGATGTTGATTTTGAAGCAATAGCAAATATGACTGATGGATATTCAGGAAGTGACCTAAAGgttgtat----ttctatatatcttttacttcaattcttgatcactggggaagatgacatgaaatactcattgactcattgttatcttttgactgcag
|||| | ||||||||| | || |||||||| |||||||||||||||| ||| |||||| | ||||||||||||||||| ||||| |||||||||||||||||||  |    | || | |||  | ||    |   ||| | ||    | |   || | |   ||| |  ||  |||      |  |   |  |||||
AATTCTGAGAGTTATTCTGGCCAAAGAAGAATTGGCACCTGATGTTGGTTTGGAAGCAGTTGCAAATATGACTGATGGGTATTCTGGAAGTGACCTAAAGgttgcctaatctcctctctattatatatgatatgccttaaacat--agaactttggcct---atattagtttcctctaatcaaattaccgtttgcag

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|13312558|gb|BG406209.1|BG406209
EST:     TTGAAGCAATAGCAAATATGACTGATGGATATTCAGGAAGTGACCTAAAG                         AATCTCTGTGTCACAGCAGCTCAATGTCCAATAAGACAGATCTTGGAGAAG
genomic: TTGAAGCAATAGCAAATATGACTGATGGATATTCAGGAAGTGACCTAAAGgttgtatttc ... ttgactgcagAATCTCTGTGTCACAGCAGCTCAATGTCCAATAAGACAGATCTTGGAGAAG
EST: gi|7686624|gb|AW757281.1|AW757281
EST:     TTGAAGCAATAGCAAATATGACTGATGGATATTCAGGAAGTGACCTAAAG                         AATCTCTGTGTCACAGCAGCTCAATGTCCAATAAGACAGATCTTGGAGAAG
genomic: TTGAAGCAATAGCAAATATGACTGATGGATATTCAGGAAGTGACCTAAAGgttgtatttc ... ttgactgcagAATCTCTGTGTCACAGCAGCTCAATGTCCAATAAGACAGATCTTGGAGAAG
EST: gi|6667763|gb|AW279214.1|AW279214
EST:     TGAAGCAATAGCAGATATGACTGATGGATATTCANGAAGTGACCTANAA-                         AATCTCTATGTCACAGCACCTCAATGTCCAAT
genomic: TGAAGCAATAGCAAATATGACTGATGGATATTCAGGAAGTGACCTA-AAGgttgtatttc ... ttgactgcagAATCTCTGTGTCACAGCAGCTCAATGTCCAAT
EST: gi|120497078|gb|EH225245.1|EH225245
EST:     TTGAAGCAATAGCAAATATGACTGATGGATATTCAGGAAGTGACCTAAAG                         AATCTCTGTGTCACAGCAGCTCAATGTCCAATAAGACAGATCTTGGAGAAG
genomic: TTGAAGCAATAGCAAATATGACTGATGGATATTCAGGAAGTGACCTAAAGgttgtatttc ... ttgactgcagAATCTCTGTGTCACAGCAGCTCAATGTCCAATAAGACAGATCTTGGAGAAG
EST: gi|8826443|gb|BE210173.1|BE210173
EST:     ATATTCAGGAAGTGACCTAAAG                         AATCTCTGTGTCACAGCAGCTCAATGTCCAATAAGACAGATCTTGGAGAAG
genomic: ATATTCAGGAAGTGACCTAAAGgttgtatttc ... ttgactgcagAATCTCTGTGTCACAGCAGCTCAATGTCCAATAAGACAGATCTTGGAGAAG
EST: gi|254341441|gb|GR850654.1|GR850654
EST:     TTGAAGCAATAGCAAATATGACTGATGGATATTCAGGAAGTGACCTAAAG                         AATCTCTGTGTCACAGCAGCTCAATGTCCAATAAGACAGATCTTGGAGAAG
genomic: TTGAAGCAATAGCAAATATGACTGATGGATATTCAGGAAGTGACCTAAAGgttgtatttc ... ttgactgcagAATCTCTGTGTCACAGCAGCTCAATGTCCAATAAGACAGATCTTGGAGAAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AATTGTCAGAGTTATTTTAGCAAAAGAAGATTTGGCACCTGATGTTGATTTTGAAGCAATAGCAAATATGACTGATGGATATTCAGGAAGTGACCTAAAGgttgtatttctatatatcttttacttcaattcttgatcactggggaagatgacatgaaatactcattgactcattgttatcttttgactgcag

- - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GATGGA