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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCATCTTTTCCTACAATGGGCTATGATGCAAGGTGTCGCCATGCTTTTACAAAACAGATATCAACGCCAAAGATTATACACTCGCATTGCACTAGGAAAGgtgccttcttatgtcatgtgcactttttctcttcagttcaaaattctatttgtttttgtaaagtttgcgttgtggtttatgttttag

Basic information

species Arabidopsis thaliana
transcript AT4G10430.1
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G10430.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: LOC_Os08g05660.1 (Oryza sativa), 5'ss of exon 7
---------------------------------------------------CCATCTTTTCCTA--CAATGGGCTA--TGATGCAAGGTGTCGCCATGCTTTTACAAAA----CAGATATCAACGCCAAAGATTATA-CACTC---GCATTGCACTAGGAAAGgtgccttcttatg---tcatgtgcactttttctcttcagttcaaaattctatttgtttttgtaaagtttgcgttgtggtttatgttttag
                                                    ||| |||| ||   |||    | |  |||| |    |||  |     ||  | | ||    | | |||| |         ||||  || |    ||||         | | |  | | | | ||   ||||||    |  |||  || ||| |||   |   ||||  |   | || |||   || ||||           
AACAGATATCAACGCCAAAGACTATATACTCGGATTGCTTTAGGAAAGgtaacatatttttctgatcaaaaaacaaactgatactctatgttcctgctgttccaaagaactttctggtatctatttgcttttttatggcatttcaagcatcatgtggctatatgcacttacctgtgagatcatgtcatttccttcattttagtccaag--taattttgcataactgaattttcttttttggtag---------

upper sequence: AT4G10430.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA20G38960.2 (Glycine max), 5'ss of exon 7
CCATCTTTTCCTACAATGGGCTATGATGCAAGGTGTCGCCATGCTTTTACAAAACAGATATCAACGCCAAAGATTATACACTCGCATTGCACTAGGAAAGgtg-ccttcttatgtcatgtgcactt--tttctcttcagttcaaaattctatttgtttttg---------taaagtttgcgttgtggtttatgttttag----------------------------------------------------------------------------
 || ||||| ||||| ||||||||||||||||| || || |||||||| |||||||||||||||||||||||| | || ||||| |||||| | |||||||||    | |||  | || |    ||  || || ||   ||    ||| || || | |||           ||| |||   | ||  | |    |   |                                                                            
ACAACTTTTTCTACAGTGGGCTATGATGCAAGGAGTTGCAATGCTTTTGCAAAACAGATATCAACGCCAAAGACTCTATACTCGTATTGCATTGGGAAAGgtgatactgttaaataatatatttttacttgctttttccttttctattttagttatattttacccaccctcaaactttcaatcgtcctgttcaatcatgattaaatttttctttttccctatagcattttatagttaatatatatatttgatccgtgtttttctctgtactttag

upper sequence: AT4G10430.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA10G44190.3 (Glycine max), 5'ss of exon 6
CCATCTTTTCCTACAATGGGCTATGATGCAAGGTGTCGCCATGCTTTTACAAAACAGATATCAACGCCAAAGATTATACACTCGCATTGCACTAGGAAAGgt-gccttcttatgtcatgtgcactt--tttctcttcagttcaaaattctatttgt-ttttgtaaagttt-----gcgttgtggtttatgttttag------------------------------------------------------------------------------------------------------
 || ||||| ||||| ||||||||||||||||| || || |||||||| ||||| |||||||||||||||||| | || ||||| |||||| | ||||||||  |  |  ||  |  | | |  ||  ||||| ||   ||    ||| || || | ||||    |   |      | || |    |   ||| |                                                                                                       
ACAACTTTTTCTACAGTGGGCTATGATGCAAGGAGTTGCAATGCTTTTGCAAAATAGATATCAACGCCAAAGACTTTATACTCGTATTGCATTGGGAAAGgttacactaataaatagtttacttttactttctttttccttttctattttagttatattttacccaccctcacaaacattctatcatccttttcaatcatgattaaacttttctttttccttataacatttatagttaaatctttcagagctggactgaaaatatataatatttgatccatgtttttctgtattttag

upper sequence: AT4G10430.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: Vv02s0025g03210.t01 (Vitis vinifera), 5'ss of exon 7
CCATCTTTTCCTACAATGGGCTATGATGCAAGGTGTCGCCATGCTTTTACAAAACAGATATCAACGCCAAAGATTATACACTCGCATTGCACTAGGAAAGgtgccttctta----tgtcat-gtgcactttttctctt---cagttcaaaattctatttgtttttgtaaagtttgcgttgtggtttatgttttag-----
 || ||||||||||||||||||||||||||||| || || |||||  ||||||| |||||||||||||| ||| | || |||||||||||| | ||||||||| | | | |    | | ||  |||| ||     |||   ||   |    ||    || |||  | |  |||    ||    || || |||| |     
ACAACTTTTCCTACAATGGGCTATGATGCAAGGAGTTGCTATGCTACTACAAAATAGATATCAACGCCAGAGACTTTATACTCGCATTGCATTGGGAAAGgtgtcatttcacaattattatcatgcatttaaaagcttatgcatgccttcttttggcttctttgggcatggttattctttgtcttgattttttgggtggg

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|125241883|gb|EL255968.1|EL255968
EST:     ATATCAACGCCAAAGATTATACACTCGCATTGCACTAGGAAAG                         GCTAAGAGAATGGATGTTGTTTGGGGAGAAACGGCTGGAGTTGATGGACAA
genomic: ATATCAACGCCAAAGATTATACACTCGCATTGCACTAGGAAAGgtgccttctt ... tatgttttagGCTAAGAGAATGGATGTTGTTTGGGGAGAAACGGCTGGAGTTGATGGACAA