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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttcgaatttgcacacatgtttgacacgaaagatgagaatcttctcgctgcggaactgactaaaagttgattgtgataacttgcagCTCTTCTATGTTGGGTCACACCAGATTTTGAACTCTATGCAGCATTTGATCCACTTGCAGACAAG

Basic information

species Arabidopsis thaliana
transcript AT2G28390.1
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G28390.1 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: GLYMA12G29450.1 (Glycine max), 3'ss of exon 12
--gtaagttcgaatttgcacacatgtttgacacgaaagatgagaatcttctcgctgcggaactgactaaaagttga--ttgtgataactt------gcagCTCTTCTATGTTGGGTCACACCAGATTTTGAACTCTATGCAGCATTTGATCCACTTGCAGACAAG
   ||     |    |  | ||||||  || |  |  | |      | | | | |||     |||  |  | |     |||| |||| ||      |||| ||| || |||||||| ||||| |||||||| || ||||| ||||||||||| ||||||||||||
taatagacaagccaatctatacatgtgggatataattgctctattacatttggatgcttcgatgaacactaatcagacttgtaataattttatttggcagTTCTGCTCTGTTGGGTAACACCGGATTTTGAGCTTTATGCTGCATTTGATCCCCTTGCAGACAAG

upper sequence: AT2G28390.1 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: GLYMA12G29450.3 (Glycine max), 3'ss of exon 12
--gtaagttcgaatttgcacacatgtttgacacgaaagatgagaatcttctcgctgcggaactgactaaaagttga--ttgtgataactt------gcagCTCTTCTATGTTGGGTCACACCAGATTTTGAACTCTATGCAGCATTTGATCCACTTGCAGACAAG-----------------------------------
   ||     |    |  | ||||||  || |  |  | |      | | | | |||     |||  |  | |     |||| |||| ||      |||| ||| || |||||||| ||||| |||||||| || ||||| ||||||||||| ||||||||||||                                   
taatagacaagccaatctatacatgtgggatataattgctctattacatttggatgcttcgatgaacactaatcagacttgtaataattttatttggcagTTCTGCTCTGTTGGGTAACACCGGATTTTGAGCTTTATGCTGCATTTGATCCCCTTGCAGACAAGGTATTGTTTTTGCTTGCCTTCATCATTTCTCAAAT

upper sequence: AT2G28390.1 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: GLYMA13G40080.1 (Glycine max), 3'ss of exon 13
-gtaagttcgaatttgcacacatgtttgacacgaaag-atgagaatcttctcgctgcgg-aactgactaaaagttga-ttgtgataactt------gcagCTCTTCTATGTTGGGTCACACCAGATTTTGAACTCTATGCAGCATTTGATCCACTTGCAGACAAG
  ||     |    |  | ||||||  || |     | |  |  || || | | |||    |   |||   |   || |||| |||| ||      |||| ||| || |||||||| ||||  |||||||| || ||||| ||||||||||| ||||||||||||
aatagacaagccaatctatacatgtgggatatagttgcactattatattttggatgctttgatgaactctgatcagacttgtaataattttatttggcagTTCTGCTCTGTTGGGTAACACAGGATTTTGAGCTTTATGCTGCATTTGATCCCCTTGCAGACAAG

upper sequence: AT2G28390.1 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: Vv06s0004g02820.t01 (Vitis vinifera), 3'ss of exon 12
gtaagttcgaatttgcacacatgtttgacacgaaagatgaga----atcttctcgctgcggaactga-ctaa--aagttg---attgtgataacttg-cagCTCTTCTATGTTGGGTCACACCAGATTTTGAACTCTATGCAGCATTTGATCCACTTGCAGACAAG
    |||         || |||  || |     | | | | |    |||   |  |||    |||   || |  |||||    ||||   | |  || ||| ||| || || ||||| || || || |||||||| |||||||||||||||||||||||||| |||
-atggtttttgcagttacccataattaatcttcatggttacattccatcgcttgactgtaagactcctctgatgaagttccatattgcttttatgtggcagTTCTCCTCTGCTGGGTTACCCCGGAGTTTGAACTTTATGCAGCATTTGATCCACTTGCAGATAAG

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|86087938|gb|DR383697.1|DR383697
EST:     AAAAGGATTGGGACCCCACAAGACTCAATATAGAAGAGATGAAAACTACA                         CTCTTCTATGTTGGGTCACACCAGATTTTGAACTCTATGCAGCATTTGATC
genomic: AAAAGGATTGGGACCCCACAAGACTCAATATAGAAGAGATGAAAACTACAgtaagttcga ... taacttgcagCTCTTCTATGTTGGGTCACACCAGATTTTGAACTCTATGCAGCATTTGATC
EST: gi|164051759|gb|ES194213.1|ES194213
EST:     ACAAGACTCAATATAGAAGAGATGAAAACTACA                         CTCTTCTATGTTGGGTCACACCAGATTTTGAACTCTATGCAGCATTTGATC
genomic: ACAAGACTCAATATAGAAGAGATGAAAACTACAgtaagttcga ... taacttgcagCTCTTCTATGTTGGGTCACACCAGATTTTGAACTCTATGCAGCATTTGATC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gatgagaatcttctcgctgcggaactgactaaaagttgattgtgataacttgcagCTCTTCTATGTTGGGTCACACCAGATTTTGAACTCTATGCAGCATTTGATCCACTTGCAGACAAG
                                          tgataac  putative branch site (score: 2)
                             taaaagtt  TA-rich tract