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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaggaaagatatatgtttctttatcaatttgaccgctgactaactgggactcttaattgactaaaaggctgctataacctactgaatgttaatgtgtggataatcagcaaacattttattgtcttccttagctttaaattttcagttaccaaagctttgtttcttcaaaatatacagGCTCGTGAATTCGCGAATGAGCTTCGTGCAAGCACAAAAGTATCACGAAATCCTACTGTCTGGCTAGAAGGATCTACGGGTTCTAGTCAGAATGCAAACA

Basic information

species Arabidopsis thaliana
transcript AT1G47550.1
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G47550.1 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: Vv18s0001g11700.t01 (Vitis vinifera), 3'ss of exon 13
gtgaggaaagatatatgtttctttatcaatttgaccgctgactaactgggactcttaattgactaaaaggctgctataacctactgaatg-ttaatgtgtggata-atcagcaaacattttattgtcttccttagctttaaattttcagttaccaaagctttgtttcttcaaaatatacagGCTCGTGAATTCGCGAATGAGCTTCGTGCAAGCACAAAAGTATCACGAAATCCTACTGTCTGGCTAGAAGGATCTACGGGTTCTAGTCAGAATGCAAACA
                                                                              || |  |   |  |||||   |   || |||      || ||||     |||  ||  ||| ||| |   ||  |  ||  ||   || |  |  || || |||||||||| || || |||||||||||||| || || |||| |||| ||||||| ||||||||||| ||||  ||||| || ||| |||| |||   ||||
------------------------------------------------------------------------------acttgataggtccttaattaattactagatcttgtgccagtttagaaa-ttcagtatgtttgaatatgtggtgtctgaaagttc--ttttatatcatctatagGCTCGTGAGTTTGCAAATGAGCTTCGTGCTAGTACCAAAGCATCAAGAAATCCAACTGTCTGGCTTGAAGCTTCTACAGGCTCTGGTCAAAATATGAACA

upper sequence: AT1G47550.1 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: EFJ29370 (Selaginella moellendorffii), 3'ss of exon 13
gtgaggaaagatatatgtttctttatcaatttgaccgctgactaactgggactcttaattgactaaaaggctgctataacctactgaatgttaatgtgtggataatcagcaaacattttat-tgtcttccttagctttaaattttcagttaccaaagctttgtttcttcaaaatatacagGCTCGTGAATTCGCGAATGAGCTTCGTGCAAGCACAAAAGTATCACGAAATCCTACTGTCTGGCTAGAAGGATCTACGGGTTCTAGTCAGAATGCAAACA
                                                                                                                | | ||| | ||  ||   |  ||||    ||   |||  | | | |||||       |||| ||||||||||||||||||| |||||||||||||||||||| || || | | | | | |  |||| ||| | ||     ||   | |  | |    |   |     
--------------------------------------------------------------------------------------------------------------gtatagtttgtgtgatttttctgactttctgattaaggttttcgatgttttgtg-----gaaatttacagGCTCGTGAATTCGCAAATGAGCTTCGTGCAAGCACGAAGGTCTTAAGGAGTTCAGCTGTTTGGATGGACAATGCTGTTGCTGGTGGAGGAACGACTGGTT

upper sequence: AT1G47550.1 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: EFJ12163 (Selaginella moellendorffii), 3'ss of exon 13
gtgaggaaagatatatgtttctttatcaatttgaccgctgactaactgggactcttaattgactaaaaggctgctataacctactgaatgttaatgtgtggataatcagcaaacattttattgtcttccttagctttaaattttcagttaccaaagctttgtttcttcaaaatatacagGCTCGTGAATTCGCGAATGAGCTTCGTGCAAGCACAAAAGTATCACGAAATCCTACTGTCTGGCTAGAAGGATCTACGGGTTCTAGTCAGAATGCAAACA
                                                                                               || ||   | |  |     |||||  || ||| || |  || |  |||||  |            ||||  |  |||| ||||||||||||||||||| |||||||||||||||||||| || || | | | | | |  |||| ||| | ||     ||   | |  | |    |  ||     
-----------------------------------------------------------------------------------------------gtatgttcagtttgtgtg-atttttctgactttctga--ttaaggttttcgat------------gttttgtggaaatttacagGCTCGTGAATTCGCAAATGAGCTTCGTGCAAGCACGAAGGTCTTAAGGAGTTCAGCTGTTTGGATGGACAATGCTGTTGCTGGTGGAGGAACGGCTGGTT

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|164099657|gb|ES128212.1|ES128212
EST:     CCCTGAACTTGCTCCTTCGTCGAGAG                         GCTCGTGAATTCGCGAATGAGCTTCGTGCAAGACACAAAAGTATCACGAAA
genomic: CCCTGAACTTGCTCCTTCGTCGAGAGgtgaggaaag ... aaatatacagGCTCGTGAATTCGCGAATGAGCTTCGTGCAAG-CACAAAAGTATCACGAAA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttccttagctttaaattttcagttaccaaagctttgtttcttcaaaatatacagGCTCGTGAATTCGCGAATGAGCTTCGTGCAAGCACAAAAGTATCACGAAATCCTACTGTCTGGCTAGAAGGATCTACGGGTTCTAGTCAGAATGCAAACA
          tttaaattttcagtta  TA-rich tract