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

gtatacgatgttctttactctggtcttgttatcatattaaaacataggaagattttgcggtctagatagagatgctaagtaacaattgaaattatgcagAGTTACATGGATGCGGAAATTAGAGGGATCATGGCACAGTACATGCCATTGGAAAGTCAACCACCCAACACAAGTGGTCACCATATGGATATATGAGTGA

Basic information

species Arabidopsis thaliana
transcript AT3G52850.1
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G52850.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: Vv08s0058g01360.t01 (Vitis vinifera), 3'ss of exon 11
gtatacgatgttctttactctggtcttgttatcatattaaaacataggaagattttgcggtctagatagagatgctaagtaacaattgaaatta-----tgcagAGTTACATGGATGCGGAAATTAGAGGGATCATGGCACAGTACATGCCATTGGAAAGTCAACCACCCAACACAAGT---GGTCACCATATGGATATATGAGTGA
   | |   | |   ||   |  | | ||       |  ||       | |    |  | || | ||     || ||| | |||| |    ||      ||||||| ||||||||| | || ||||| |  |||||||||||||||||||| ||||| | ||||  |   |   ||| |   | || ||||  ||| || |      
---tgcatggatacctagattaatgtggtacgtgcctgtaattgctatatggaaataggatcaatatgattgtgttaa-tgacaacttccttttgctgttgcagAGATACATGGATTCTGAGATTAGGGCAATCATGGCACAGTACATGCCTTTGGATAATCAAGGAGAGATTCCAAATCATGTTCCCCATGGGGACATTTAGA---

upper sequence: AT3G52850.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: EFJ30872 (Selaginella moellendorffii), 3'ss of exon 11
gtatacgatgttctttactctggtcttgttatcatattaaaacataggaagattttgcggtctagatagagatgctaagtaacaattgaaattat----gcagAGTTACATGGATGCGGAAATTAGAGGGATCATGGCACAGTACATGCCATTGGAAAGTCAAC-CACCCAACACAAGTGGTCACCATATGGATATATGAGTGA
                               | |||| ||  | |     ||||    | || ||  | |  |          | | |||| | |    | ||  |||||||||| |||| |||||||  ||||||||||||||||||||  | || || |||  |      ||  |    |  | | | ||||   ||| || 
------------------------------gtaatatcaattcgt-----gattgcttgatccagcaaaacttaacgttctctactggaaacttttcctgtagTCTTACATGGATTCGGAGATTAGAGCTATCATGGCACAGTACATGCCGCTCGACAGCCAAAACGATGTGCATCACCACTTGCAAGA-GGATGCTTGATTGT

upper sequence: AT3G52850.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: EFJ31111 (Selaginella moellendorffii), 3'ss of exon 10
gtatacgatgttctttactctggtcttgttatcatattaaaacataggaagattttgcggtctagatagagatgctaagtaacaattgaaattatgcagAGTTACATGGATGCGGAAATTAGAGGGATCATGGCACAGTACATGCCATTGGAAAGTCAACCACCCAACACAA-GTGGTCACCATATGGATATATGAGTGA-
                                 |  | |   |   || |    || ||||    || |||   ||  ||  |   ||    |  ||||  ||| |||||| |||| ||||||| ||||||||| |||||||||||  |||| || ||   ||  |   ||  |    | | |   |||    | ||||| 
-------------------------------gtacgtgatctctctggcattcattccggttggtattgag---ctgtgtggctgctgg---ttggcagTCTTATATGGATTCGGAGATTAGAGCGATCATGGCGCAGTACATGCCTCTGGACAGCCAGA-ACGAAGTCCACCGCCACCTCGAGGAGGAAGCGT-AGTGAT

upper sequence: AT3G52850.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: EFJ06539 (Selaginella moellendorffii), 3'ss of exon 10
gtatacgatgttctttactctggtcttgttatcatattaaaacataggaagattttgcggtctagatagagatgctaagtaacaattgaaattatgcagAGTTACATGGATGCGGAAATTAGAGGGATCATGGCACAGTACATGCCATTGGAAAGTCAACCACCCAACACAA-GTGGTCACCATATGGATATATGAGTGA-
                                 |  | |   |   || |    || ||||    || |||   ||  ||  |   ||    |  ||||  ||| |||||| |||| ||||||| ||||||||| |||||||||||  |||| || ||   ||  |   ||  |   || | |   |||    | ||||| 
-------------------------------gtacgtgatctctctggcattcattccggttggtattgag---ctgtgtggctgctgg---ttggcagTCTTATATGGATTCGGAGATTAGAGCGATCATGGCGCAGTACATGCCTCTGGACAGCCAGA-ACGAAGTCCACCGCCATCTCGAGGAGGAAGCGT-AGTGAT

upper sequence: AT3G52850.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: EFJ22768 (Selaginella moellendorffii), 3'ss of exon 11
gtatacgatgttctttactctggtcttgttatcatattaaaacataggaagattttgcggtctagatagagatgcta-agtaacaattgaaattatgcagAGTTACATGGATGCGGAAATTAGAGGGATCATGGCACAGTACATGCCATTGGAAAGTCAAC-CACCCAACACAAGTGGTCACCATATGGATATATGAGTGA
                               | |||| ||  | |       |  | | |   |  |  |  | ||  | |   || |    |  || ||  |||||||||| |||| |||||||  ||||||||||||||||||||  | || || |||  |  |   ||  |    |  | | | ||||   ||| || 
------------------------------gtaatatcaattcgtgctcgcttgatccagcaaaacttaacgttctctactggaaacttt--tcctgtagTCTTACATGGATTCGGAGATTAGAGCTATCATGGCACAGTACATGCCGCTCGACAGCCAAAACGACGTGCATCACCACTTGCAAGA-GGATGCTTGATTGT

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|86074500|gb|DR370257.1|DR370257
EST:     TGGGTGTTGCAGGTCTTTCTGGATATGCAGTCTACAAATACAGAATCAGG                         AGTTACATGGATGCGGAAATTAGAGGGATCATGGCACAGTACATGCCATTG
genomic: TGGGTGTTGCAGGTCTTTCTGGATATGCAGTCTACAAATACAGAATCAGGgtatacgatg ... aattatgcagAGTTACATGGATGCGGAAATTAGAGGGATCATGGCACAGTACATGCCATTG
EST: gi|124886263|gb|EH965165.1|EH965165
EST:     TGGGTGTTGCAGGTCTTTCTGGATATGCAGTCTACAAATACAGAATCAGG                         AGTTACATGGATGCGGA
genomic: TGGGTGTTGCAGGTCTTTCTGGATATGCAGTCTACAAATACAGAATCAGGgtatacgatg ... aattatgcagAGTTACATGGATGCGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taggaagattttgcggtctagatagagatgctaagtaacaattgaaattatgcagAGTTACATGGATGCGGAAATTAGAGGGATCATGGCACAGTACATGCCATTGGAAAGTCAACCACCCAACACAAGTGGTCACCATATGGATATATGAGTGA
                                aagtaac  putative branch site (score: 2)
                                   taacaattgaaattat  TA-rich tract