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'   		32  
 5'  3'   		33  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCAGATATTGGTCTATCAATGGGCATTCAGGGAACTGAAGTTGCCAAGGAGAGTTCTGATATTATTATCTTGGATGACAATTTCGCATCAGTCGTGAGGgtacgttaaggactagtttgggaacaccattttcccaaaggattttaattttccaagggaaattagttcattttcccttgggaaaaatagaaatctcttgggaaaattgagttcccaaactagccctaaatgtgtttatatttttttgttagccttctgctactgtagttcatggtgtttgtttctggcttcag

Basic information

species Zea mays
transcript GRMZM2G140328_T03
intron # 26
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G140328_T03 (Zea mays), 5'ss of exon 26
lower sequence: LOC_Os04g51610.3 (Oryza sativa), 5'ss of exon 26
GCAGATATTGGTCTATCAATGGGCATTCAGGGAACTGAAGTTGCCAAGGAGAGTTCTGATATTATTATCTTGGATGACAATTTCGCATCAGTCGTGAGGgtacgttaaggactagtttgggaacaccattttcccaaaggattttaattttccaagggaaattagttcattttcccttgggaaaaatagaaatctcttgggaaaattgagttcccaaactagccctaaatgtgtttatatttttttgttagccttctgctactgtagttcatggtgtttgtttctggcttcag
|||||||| ||||| || |||||||| |||||||||||||||||||||||||||||||||||||| ||||||||||||||||| ||||| |||||||||||| ||     |||   ||  |         ||||   | || |  || ||    |  | | |   |||  |  |  || |                                                                                                                 
GCAGATATAGGTCTCTCCATGGGCATCCAGGGAACTGAAGTTGCCAAGGAGAGTTCTGATATTATCATCTTGGATGACAATTTTGCATCGGTCGTGAGGgtatgt---acactgtgttctgttattggccttcc---atgactgcaactt----atagtattcttttctctcgcttttag-----------------------------------------------------------------------------------------------------------------

upper sequence: GRMZM2G140328_T03 (Zea mays), 5'ss of exon 26
lower sequence: GLYMA13G00420.1 (Glycine max), 5'ss of exon 26
GCAGATATTGGTCTATCAATGGGCATTCAGGGAACTGAAGTTGCCAAGGAGAGTTCTGATATTATTATCTTGGATGACAATTTCGCATCAGTCGTGAGGgt--acgttaaggactagtttgggaacaccattttcccaaaggattttaattttccaagggaaattagttcattttcccttgggaaaaatagaaatctcttgggaaaattgagttcccaaactagccctaaatgtgtttatatttttttgttagccttctgctactgtagttcatggtgtttgtttctggcttcag
|| |||||||||||  ||||||| || || || || |||||||| || ||||| |||||||| ||||| |||||||||||||| || ||||| |||| |||   |  | |   ||  |||| ||     |||||    ||   || | ||     | |     ||    ||| | |  || | ||   ||| | ||  ||  |  | |                                                                                       
GCCGATATTGGTCTTGCAATGGGTATCCAAGGTACAGAAGTTGCTAAAGAGAGCTCTGATATCATTATTTTGGATGACAATTTTGCTTCAGTTGTGAAGgttagccctcatttcttatttgagag----atttt---gaactgttcttataaatgatgcacgtttga--catctactttttg-aaggttagtactcatttctggcatta--------------------------------------------------------------------------------------

upper sequence: GRMZM2G140328_T03 (Zea mays), 5'ss of exon 26
lower sequence: GLYMA17G06520.1 (Glycine max), 5'ss of exon 28
GCAGATATTGGTCTATCAATGGGCATTCAGGGAACTGAAGTTGCCAAGGAGAGTTCTGATATTATTATCTTGGATGACAATTTCGCATCAGTCGTGAGGgtacgt--taaggactagtttgggaacaccattttcccaaaggattttaattttccaagggaaattagttcattttcccttgggaaaaatagaaatctcttgggaaaattgagttcccaaactagccctaaatgtgtttatatttttttgttagccttctgctactgtagttcatggtgtttgtttctggcttcag
|| |||||||||||  ||||||| || || || || |||||||| || ||||| |||||||| ||||| |||||||||||||| || ||||| |||| |||  ||  | |   ||  ||||| |     |||||    ||   || | ||     | |     |||   ||| | || || | |  | |    || ||| |    | ||||                                                                                    
GCCGATATTGGTCTTGCAATGGGTATCCAAGGTACAGAAGTTGCTAAAGAGAGCTCTGATATCATTATTTTGGATGACAATTTTGCTTCAGTTGTGAAGgttagtcctcatttcttatttggaag----atttt---gaactgttcttataaatgatgcatgtttaa--catctaccttttgaaggact----atttctggcattacttgaa-----------------------------------------------------------------------------------

upper sequence: GRMZM2G140328_T03 (Zea mays), 5'ss of exon 26
lower sequence: GLYMA07G00630.2 (Glycine max), 5'ss of exon 25
GCAGATATTGGTCTATCAATGGGCATTCAGGGAACTGAAGTTGCCAAGGAGAGTTCTGATATTATTATCTTGGATGACAATTTCGCATCAGTCGTGAGGgtacgttaaggactagtttgggaacac-cattttcccaaaggattttaattttccaagggaaattagttcattttcccttgggaaaaatagaaatctcttgggaaaattgagttcccaaactagccctaaatgtgtttatatttttttgttagccttctgctactgtagttcatggtgtttgtttctggcttcag
|| ||||||||||| || |||||||| || |||||||||||||| || || || || |||||||| ||| | || || || || |||||||| || | |||| ||   |  ||| ||     |  | ||   |   | | ||| ||   || |         ||  |  || ||| | | | |||          | ||||| ||     | |||||                                                                             
GCTGATATTGGTCTTTCTATGGGCATCCAAGGAACTGAAGTTGCAAAAGAAAGCTCAGATATTATAATCCTAGACGATAACTTTGCATCAGTGGTAAAGgtaggt---gttctatttaatacattctcaggcttggatatgatattgtcttcc-------gtttcctgtatcttctcctagtaaa---------ttgttgggtaatcaacgctcccac----------------------------------------------------------------------------

upper sequence: GRMZM2G140328_T03 (Zea mays), 5'ss of exon 26
lower sequence: GLYMA09G06890.1 (Glycine max), 5'ss of exon 25
GCAGATATTGGTCTATCAATGGGCATTCAGGGAACTGAAGTTGCCAAGGAGAGTTCTGATATTATTATCTTGGATGACAATTTCGCATCAGTCGTGAGGgtacgttaaggactagtttgggaacaccattttcccaaaggattttaattttccaagggaaattagttcattttcccttgggaaaaatagaaatctcttgggaaaattgagttcccaaactagccctaaatgtgtttatatttttttgttagccttctgctactgtagttcatggtgtttgtttctggcttcag
|| ||||| |||||  ||||||| || || || || ||||||||||| ||||| |||||||| ||||| |||||||||||||| || ||||| |||| |||  ||     |||| |||| ||      | ||      |  ||||    ||   || | || |    || |||       ||| | |     |    || ||       |||   | |  ||    |  ||  ||||        | ||      |  ||  ||  |   || |||||| |   ||| |  ||
GCCGATATAGGTCTTGCAATGGGTATCCAAGGTACAGAAGTTGCCAAAGAGAGCTCTGATATCATTATTTTGGATGACAATTTTGCTTCAGTTGTGAAGgtttgt-----actactttgagatatttttatttgttctgttttttgccattagtagtggaaatg---cacttttt-----gaacactgattgtacaatgagag------gtttatatagaagt--gaggtgcatttaa-------tattgaagcacaactgatgatgacaattgtgtttctccatggttgtag

upper sequence: GRMZM2G140328_T03 (Zea mays), 5'ss of exon 26
lower sequence: GLYMA13G44990.1 (Glycine max), 5'ss of exon 27
GCAGATATTGGTCTATCAATGGGCATTCAGGGAACTGAAGTTGCCAAGGAGAGTTCTGATATTATTATCTTGGATGACAATTTCGCATCAGTCGTGAGGgtacgttaaggactagtttgggaacaccattttcccaaaggattttaattttccaagg--gaaattagttcattttcccttgggaaaaatagaaatctcttgggaaaattgagttcccaaactagccctaaatgtgtttatatttttttgttagccttctgctactgtagttcatggtgtttgtttctggcttcag
|||||||||||||| || |||||||| || ||||| |||||||| || || ||||| |||||||| ||||||||||| || || |||||||| || | |||| | |    | |  ||     | | ||| |     | || | |   ||||    |   |  ||| || || |||| | ||   ||  ||||| |                                                                                                    
GCAGATATTGGTCTTTCTATGGGCATCCAAGGAACAGAAGTTGCAAAAGAAAGTTCAGATATTATAATCTTGGATGATAACTTTGCATCAGTAGTAAAGgtaagcttgttatttattcactta-agcatgtattatatggttgtctttttttggtgtctgtcattggtacaatttcacatgctcaacttagaagttataa-----------------------------------------------------------------------------------------------

upper sequence: GRMZM2G140328_T03 (Zea mays), 5'ss of exon 26
lower sequence: GLYMA15G00340.1 (Glycine max), 5'ss of exon 27
GCAGATATTGGTCTATCAATGGGCATTCAGGGAACTGAAGTTGCCAAGGAGAGTTCTGATATTATTATCTTGGATGACAATTTCGCATCAGTCGTGAGGgtacg-ttaaggactagtttgggaacaccatt-ttcccaaaggattttaattttccaag--ggaaattagttcattttcccttgggaaaaatagaaatctcttgggaaaattgagttcccaaactagccctaaatgtgtttatatttttttgttagccttctgctactgtagttcatggtgtttgtttctggcttcag
|||||||||||||| || |||||||| || ||||| |||||||| || || ||||| |||||||| ||||||||||| || || |||||||| || | |||| | ||   | ||  |||  |    |  |  ||   | | ||||| |  |   |||      || |  |  |  || | |||| ||  ||     |  | | |                                                                                             
GCAGATATTGGTCTTTCTATGGGCATCCAAGGAACAGAAGTTGCAAAAGAAAGTTCAGATATTATAATCTTGGATGATAACTTTGCATCAGTAGTAAAGgtaagcttgttgtcttttttttggtgtctgtcattggtacatgatttcacatgctcaacttaagaacttatatacatttctttggcaatgat-----ttgcctag---------------------------------------------------------------------------------------------

upper sequence: GRMZM2G140328_T03 (Zea mays), 5'ss of exon 26
lower sequence: GLYMA15G18180.1 (Glycine max), 5'ss of exon 25
GCAGATATTGGTCTATCAATGGGCATTCAGGGAACTGAAGTTGCCAAGGAGAGTTCTGATATTATTATCTTGGATGACAATTTCGCATCAGTCGTGAGGgtacgttaaggactagtttgggaacaccattttcccaaaggattttaattttccaagggaaattagttcattttcccttgggaaaaatagaaatctcttgggaaaattgagttcccaaactagccctaaatgtgtttatatttttttgttagccttctgctactgtagttcatggtgtttgtttctggcttcag
|| ||||| |||||| ||||||| || || || || ||||||||||| ||||| || ||||| ||||| |||||||||||||| || ||||| |||| |||      || |||| |||| ||        ||      |  ||||    ||   ||    |  | | || |||       ||| | |     |    || ||   ||   |    | | | |    |  ||  || | || |||     |     |  ||  ||  |   || || ||| |   ||| |  ||
GCCGATATAGGTCTAGCAATGGGTATCCAAGGTACAGAAGTTGCCAAAGAGAGCTCCGATATCATTATTTTGGATGACAATTTTGCTTCAGTTGTGAAGgtt-----agtactactttgagatattttaatttgttctgttttttgtcattagtagaagtagaaatgcacttttt-----gaatactgattgtacaatgagaggtttatat----agaattg----aggtgcattga-atatttgaagca-----caactgatgatgacaattgtttttctccatggttgtag

upper sequence: GRMZM2G140328_T03 (Zea mays), 5'ss of exon 26
lower sequence: AT3G21180.1 (Arabidopsis thaliana), 5'ss of exon 25
GCAGATATTGGTCTATCAATGGGCATTCAGGGAACTGAAGTTGCCAAGGAGAGTTCTGATATTATTATCTTGGATGACAATTTCGCATCAGTCGTGAGGgtacgttaaggact---agtttgggaacac-cattttcccaaaggattttaattttccaagggaaattagttcattttcccttgggaaaaatagaaatctcttgggaaaattgagttcccaaactagccctaaatgtgtttatatttttttgttagccttctgctactgtagttcatggtgtttgtttctggcttcag
|||||||| ||||| || ||||| ||    |||||||||||||| || ||||||||||| || ||||| |||||||||||||| || ||||| || | |||  ||  |  ||    | | | | ||||     | | | | |  ||  |   | |  | |      || |  ||   | ||    |    |  |                                                                                                       
GCAGATATAGGTCTCTCTATGGGTATATCAGGAACTGAAGTTGCAAAAGAGAGTTCTGACATCATTATTTTGGATGACAATTTTGCTTCAGTAGTAAAGgttagtctactacatcaaatatagaaacatgtgatcttctacattatccttcatctttatgcttttctaatcaataaactctgtttactcttccag------------------------------------------------------------------------------------------------------

upper sequence: GRMZM2G140328_T03 (Zea mays), 5'ss of exon 26
lower sequence: Vv09s0018g02130.t01 (Vitis vinifera), 5'ss of exon 27
GCAGATATTGGTCTATCAATGGGCATTCAGGGAACTGAAGTTGCCAAGGAGAGTTCTGATATTATTATCTTGGATGACAATTTCGCATCAGTCGTGAGGgtacgt-taag--gactagtttgggaacaccattttcccaaaggattttaattttccaagggaaattagttcattttcccttgggaaaaatagaaatctcttgggaaaattgagttcccaaactagccctaaatgtgtttatatttttttgttagccttctgctactgtagttcatggtgtttgtttctggcttcag
|||||||| ||||| || ||||||||||| |||||||||||||| || || || || || || |||||||||||||| || || || ||||| || | |||  || ||||   || | ||  |  |    ||| ||        || || || |   |    |  | |||   |||        || | |   ||||  ||                                                                                               
GCAGATATAGGTCTCTCTATGGGCATTCAAGGAACTGAAGTTGCAAAAGAAAGCTCAGACATCATTATCTTGGATGATAACTTTGCCTCAGTTGTAAAGgttagtgtaagcaaaccatttatgtgagtaaattgtcttgggaatttgtagttat--gattctaccttgttatatttaaaacaaaaatactgtcaatccttt-----------------------------------------------------------------------------------------------

upper sequence: GRMZM2G140328_T03 (Zea mays), 5'ss of exon 26
lower sequence: Vv11s0052g00320.t01 (Vitis vinifera), 5'ss of exon 28
GCAGATATTGGTCTATCAATGGGCATTCAGGGAACTGAAGTTGCCAAGGAGAGTTCTGATATTATTATCTTGGATGACAATTTCGCATCAGTCGTGAGGgt--------acgtta-aggactagtttggg-----aacaccattttcccaaaggattttaattttccaagggaaattagttcattttcccttgggaaaaatagaaatctcttgggaaaattgagttcccaaactagccctaaatgtgtttatatttttttgttagccttctgctactgtagttcatggtgtttgtttctggcttcag
||||||||||||||  |||||||||||   ||||| || ||||| || ||||| ||||| || |||||||||||||||||||| || ||||| || | |||         | ||  | || || |||  |     || | ||  |    ||| || |  || |  |  |    |||   |||||     ||||   |||                                                                                                            
GCAGATATTGGTCTTGCAATGGGCATTTCAGGAACAGAGGTTGCAAAAGAGAGCTCTGACATCATTATCTTGGATGACAATTTTGCGTCAGTTGTCAAGgttagtctgtgcattgtaagagtattttaagtgatcaatagcaaatatgtaaatgactgcaactcccacaaatgaatgttttcatccaatcttgaacaaa------------------------------------------------------------------------------------------------------------

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|67041185|gb|CO467440.1|CO467440
EST:     AGAGTTCTGATATTATTATCTTGGATGACAATTTCGCATCAGTCGTGAGG                         GTTGTCAGATGGGGTCGTTCGGTGTATGCAAACATACAGAAGTTTATACAA
genomic: AGAGTTCTGATATTATTATCTTGGATGACAATTTCGCATCAGTCGTGAGGgtacgttaag ... ctggcttcagGTTGTCAGATGGGGTCGTTCGGTGTATGCAAACATACAGAAGTTTATACAA