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

TGCTATAATCGAGTATATCCCTTTGTTGGCAAGTCAGTTAGGTGTTGGCTTCTTTGACGATAAGCTTGGTGCTCTTTGCATGCAATGGTTACAAGACAAGgtatttctttctctctcttacttttactgggaatgatcagattataccgcttcttatttatagaaattgatttttttttttttttttttttttttttttttttgcggatgctctcattag

Basic information

species Arabidopsis thaliana
transcript AT3G25800.1
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G25800.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: LOC_Os09g07510.1 (Oryza sativa), 5'ss of exon 9
TGCTATAATCGAGTATATCCCTTTGTTGGCAAGTCAGTTAGGTGTTGGCTTCTTTGACGATAAGCTTGGTGCTCTTTGCATGCAATGGTTACAAGACAAGgtatttctttctctctcttacttttactgggaatgatcagattataccgcttcttatttatagaaattgatttttttttttttttttttttttttttttttttgcggatgctctcattag
||| ||||| ||||| || ||||| ||||| ||||| ||||| ||||| || || || || ||||| || || |||||||||||||||||  |||| |||||||||      || || | ||         | |     ||| || |    | || |  | | |           | |  | || |     |   |   | | ||   || | |      
TGCAATAATTGAGTACATTCCTTTATTGGCTAGTCAATTAGGCGTTGGATTTTTCGATGACAAGCTGGGGGCACTTTGCATGCAATGGTTGGAAGATAAGgtatttaccaggctgtcattct--------aagtctctcgatcat-ctatatattgtgcacaaaggca------ctctaatattatcaacatacgtgagtgtagcaactgttttt-----

upper sequence: AT3G25800.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GRMZM2G164352_T04 (Zea mays), 5'ss of exon 9
TGCTATAATCGAGTATATCCCTTTGTTGGCAAGTCAGTTAGGTGTTGGCTTCTTTGACGATAAGCTTGGTGCTCTTTGCATGCAATGGTTACAAGACAAGg--tatttcttt----ctctctcttacttttactgggaatgatcagattataccgcttcttatttatagaaattgatttttttttttttttttttttttttttttttttgcggatgctctcattag------------------
||| ||||| ||||| ||||| |||||||| ||||| ||||||||||| || || || || ||||| || || || ||||||||||||||  |||||||||  | | || ||     | | ||  |    ||        || | |  |  | ||  | |   |||||    |||| |   | ||    ||| |  | | ||   |      |    | | | ||                   
TGCAATAATTGAGTACATCCCATTGTTGGCGAGTCAATTAGGTGTTGGGTTTTTCGATGACAAGCTGGGGGCGCTCTGCATGCAATGGTTGGAAGACAAGgtttgtatcattagggttatgtcaaaacagtatctctttggagctgtctccagcgtctttatcttatatcc-ttgagtgcatattggactttgtaatgtattgactaaaattgtcagtttaactaactaaaatttggatttcag

upper sequence: AT3G25800.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GRMZM2G122135_T04 (Zea mays), 5'ss of exon 9
TGCTATAATCGAGTATATCCCTTTGTTGGCAAGTCAGTTAGGTGTTGGCTTCTTTGACGATAAGCTTGGTGCTCTTTGCATGCAATGGTTACAAGACAAGgtatttctttctctctcttacttttactgggaatgatcagattatacc---gcttcttatttatagaaattgattttttt--ttttttttttttttttttttttttttgcggatgctctc-attag----------------------
||| ||||| ||||| ||||| ||| |||| ||||||||||||||||| || ||||| || ||||| || || || ||||||||||||||  |||| |||||   | |  ||     |   |   |   | || | |  |    |||    || ||||   | |  |  |||  |  |    |   | |      || |  | | ||  |  ||| | |  ||||                       
TGCAATAATTGAGTACATCCCATTGCTGGCGAGTCAGTTAGGTGTTGGGTTTTTTGATGACAAGCTGGGGGCACTCTGCATGCAATGGTTGGAAGATAAGgttcgtatcactagacttatgtcaaaacagtaacgctgtggggctactcaagcatctttcctttccatcttgtatcctcgagtgcatataggacattgtgatgtattgactaatggtttagattaactaaccaaaatttggatttcag

upper sequence: AT3G25800.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GRMZM2G102858_T01 (Zea mays), 5'ss of exon 9
TGCTATAATCGAGTATATCCCTTTGTTGGCAAGTCAGTTAGGTGTTGGCTTCTTTGACGATAAGCTTGGTGCTCTTTGCATGCAATGGTTACAAGACAAGgtat-ttctttctctctcttacttttactgggaatgatcagattatac--------cgcttcttatttatagaaattgatttttttttttttttttttt---tttttttttttttgcggatgctctcattag-----------------------------
||| ||||| ||||| || ||||||||||| || |||||||||||||| || ||||| || ||| | || || ||||||||||| |||||  |||| |||||   |   |  | || |  ||  ||| |    | | ||   | || |         || |  ||||| ||   || |  |||||  | | | |   ||   || ||  ||  ||     |  | | ||                                
TGCCATAATTGAGTACATACCTTTGTTGGCCAGCCAGTTAGGTGTTGGTTTTTTTGATGACAAGTTAGGGGCACTTTGCATGCAGTGGTTGGAAGATAAGgtgcataaataatttcaccaaccattattacacaagttccattaatgcagaaaccatgcatactatttctaatgatggtctttttagtctatataagttgaattcttgattgattctatgtaatgtaatagtgactcaaaataccaaacatttggcttcag

upper sequence: AT3G25800.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA02G10790.1 (Glycine max), 5'ss of exon 9
TGCTATAATCGAGTATATCCCTTTGTTGGCAAGTCAGTTAGGTGTTGGCTTCTTTGACGATAAGCTTGGTGCTCTTTGCATGCAATGGTTACAAGACAAGgtatttctttctctctcttacttttactgggaatgatcagattataccgcttcttatttatagaaattgatttttttttttttttttttttttttttttttttgcggatgctctcattag
||| ||||| || ||||| || || || |||||||| || || ||||| || ||| | || || |||||||||||||||||||| |||||||| ||||||||  || |        | | ||  |  || | || ||   |  | ||| | | || |  ||    ||||   ||    |  || ||| || |                            
TGCAATAATAGAATATATACCCTTATTAGCAAGTCAATTGGGGGTTGGGTTTTTTTATGACAAACTTGGTGCTCTTTGCATGCAGTGGTTACAGGACAAGgt--ttgtggactctacatgctagt-ttgagcat-attttaggaaaccaccttttctacatgactattgtcgttaacctcattgtttgttgtag--------------------------

upper sequence: AT3G25800.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA10G42250.1 (Glycine max), 5'ss of exon 9
TGCTATAATCGAGTATATCCCTTTGTTGGCAAGTCAGTTAGGTGTTGGCTTCTTTGACGATAAGCTTGGTGCTCTTTGCATGCAATGGTTACAAGACAAGgtatttctttctctctcttacttttactgggaatgatcagattataccgcttcttatttatagaaattgatttttttttttttttttttttttttttttttttgcggatgctctcattag
||| || || || ||||| || || ||||||||||| || || ||| | || || || || ||||||||||||||||||||||| |||||||| || ||||| | |  |   | ||     |  || || |  ||          || || | ||    ||       | ||||| ||       ||  || || |                        
TGCAATTATAGAATATATACCCTTATTGGCAAGTCAATTGGGGGTTAGTTTTTTCGATGACAAGCTTGGTGCTCTTTGCATGCAGTGGTTACAGGATAAGgtttgtgctctacacttcc-ttgctagtgtgggtgcattttgggaactgcatattgcacatga----cggtttttgttaaccaccttagttattgtag----------------------

upper sequence: AT3G25800.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA20G24790.1 (Glycine max), 5'ss of exon 9
TGCTATAATCGAGTATATCCCTTTGTTGGCAAGTCAGTTAGGTGTTGGCTTCTTTGACGATAAGCTTGGTGCTCTTTGCATGCAATGGTTACAAGACAAGgtatttctttctctctcttacttttactgggaatgatcagattataccgcttcttatttatagaaattgatttttttttttttttttttttttttttttttttgcggatgctctcattag
||| || || || ||||| || || ||||||||||| || || ||| | || ||||| || || |||||||||||||||||||| |||||||| || ||||| ||    ||||    |   |  || || |  ||        ||   |     |   ||| | |  ||| | ||||| ||       ||  || || |                     
TGCAATTATAGAATATATACCCTTATTGGCAAGTCAATTGGGGGTTAGGTTTTTTGATGACAAACTTGGTGCTCTTTGCATGCAGTGGTTACAGGATAAGgt-ttgtgctctccacttccttgctagtgtgggtg-------cattttgggaactgcatattgcacatgactgtttttgttaacaaccttagttattgtag-------------------

upper sequence: AT3G25800.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: Vv01s0011g03280.t01 (Vitis vinifera), 5'ss of exon 8
TGCTATAATCGAGTATATCCCTTTGTTGGCAAGTCAGTTAGGTGTTGGCTTCTTTGACGATAAGCTTGGTGCTCTTTGCATGCAATGGTTACAAGACAAGgtatttctttctctctcttactt----ttactgggaatgatcagattataccgcttcttatttatagaaattgatttttttttttttttttttttttttttttttttgcggatgctctcattag
||| ||||| |||||||| |||||||||||||||||||| ||| |    || ||||| ||| |||||||||||||||||||||| ||| |||| || ||||| | | ||||||| ||||        | | | ||||  ||   ||  |  |  || ||  || ||  |||| | |  |||    || | | ||||||||                        
TGCAATAATAGAGTATATTCCTTTGTTGGCAAGTCAGTTGGGTATAAAGTTTTTTGATGATGAGCTTGGTGCTCTTTGCATGCAGTGGCTACAGGATAAGgtttgtgtttctctgtcttgtcaagcatcatttggaaatatataatgctttcttttttttattctactaattcaatcctttacaattctatatttttttt------------------------

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|301501085|gb|HO206625.1|HO206625
EST:     TCTTTGACGATAAGCTTGGTGCTCTTTGCATGCAATGGTTACAAGACAAG                         GTTCACTCAATCCGCGATGCTGCTGCTAACAATCTCAAGCGGCTTGCTGAG
genomic: TCTTTGACGATAAGCTTGGTGCTCTTTGCATGCAATGGTTACAAGACAAGgtatttcttt ... ctctcattagGTTCACTCAATCCGCGATGCTGCTGCTAACAATCTCAAGCGGCTTGCTGAG