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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGTTCTTGATGCCCTTTTCCCTTCTGTTCTTGGTGGAACCTGTGCCATTCCTGGTGCTTTTGGCTGTGGGAAAACTGTTATCAGTCAGGCACTTTCCAAGgtaccttgtgacactctctggttttgttccatttaattactggatagattgaatttccaaagctaactttttcttatttacatag

Basic information

species Arabidopsis thaliana
transcript AT1G78900.1
intron # 11
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G78900.2 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: LOC_Os02g07870.1 (Oryza sativa), 5'ss of exon 10
TGTTCTTGATGCCCTTTTCCCTTCTGTTCTTGGTGGAACCTGTGCCATTCCTGGTGCTTTTGGCTGTGGGAAAACTGTTATCAGTCAGGCACTTTCCAAGgtaccttgtgacactctctggttttgttccatttaattactggatagattgaatttccaa--agctaactttttcttatttacatag-----------------------------
||| ||||||||  | ||||| || |||||||| ||||| |||||||||||||| |||||||| ||||| || ||||| || ||||||||||||||||||||      |     ||| |   |   | |||| || |  ||  | | | |  | |  |     | |  |||  ||  || |   ||                              
TGTACTTGATGCATTGTTCCCCTCAGTTCTTGGAGGAACATGTGCCATTCCTGGAGCTTTTGGTTGTGGAAAGACTGTCATTAGTCAGGCACTTTCCAAGgtgatcactatttttctattcctcattgccatgtagtatctatagaaactatactctctttttgttgccttgatcacatctttgtactgagatgaatagcctctcaaactctgcag

upper sequence: AT1G78900.2 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: LOC_Os06g45120.1 (Oryza sativa), 5'ss of exon 10
TGTTCTTGATGCCCTTTTCCCTTCTGTTCTTGGTGGAACCTGTGCCATTCCTGGTGCTTTTGGCTGTGGGAAAACTGTTATCAGTCAGGCACTTTCCAAGgtaccttg--tgacactctctggttttgttccattta-attactggatagattgaatttccaaagctaact---ttttcttatttacatag-------------------
||| |||||||| || || || || |||||||| ||||| ||||| |||||||| || ||||| ||||| |||||||| || |||||||||||||| ||||||  ||   |    ||||||  ||     |   |   ||| |      |  | |   |   ||  | |||   || | |   || | |                     
TGTACTTGATGCACTATTTCCCTCAGTTCTTGGAGGAACTTGTGCTATTCCTGGAGCATTTGGTTGTGGAAAAACTGTCATTAGTCAGGCACTTTCAAAGgtattttcactattcctctctatttgataactgctagcattgcccatgggcattagccttttaaaatgactgaattctgtgcctttcctgactgaaaatatcttatgcag

upper sequence: AT1G78900.2 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: GRMZM2G421857_T03 (Zea mays), 5'ss of exon 10
TGTTCTTGATGCCCTTTTCCCTTCTGTTCTTGGTGGAACCTGTGCCATTCCTGGTGCTTTTGGCTGTGGGAAAACTGTTATCAGTCAGGCACTTTCCAAGgt-accttgtgacactct---ctggttttgttcca-----tttaattactggatagattgaatttccaaagc--taactttttcttatttacatag-------------------
||| || ||||| || ||||| || ||||| || || || ||||| ||||| || || ||||||||||| |||||||| || |||||||||||||||||||| |  ||    ||| ||   ||  |  |  |||      | |  |  ||| | | |||   | | ||  |   | |   | || | |||| |                      
TGTACTGGATGCACTATTCCCCTCGGTTCTGGGAGGCACTTGTGCTATTCCAGGAGCATTTGGCTGTGGTAAAACTGTCATTAGTCAGGCACTTTCCAAGgtgattttccctcaccctttactactcctactcccccttctgttgtagctgtacatattttttcttcattgtcttgatgatatcatctttaaactttgcctaatgttatctgcag

upper sequence: AT1G78900.2 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: GRMZM2G128877_T03 (Zea mays), 5'ss of exon 7
TGTTCTTGATGCCCTTTTCCCTTCTGTTCTTGGTGGAACCTGTGCCATTCCTGGTGCTTTTGGCTGTGGGAAAACTGTTATCAGTCAGGCACTTTCCAAGgt-accttgtgacactctctggttttgttccattta--attactggatagattgaatttccaaagctaactttttcttatttacatag----------------------
||| || ||||| || ||||| || ||||| || || || ||||| ||||| || || ||||| ||||| |||||||| || |||||||||||||||||||| |  |     ||| || |  |  || ||||| |    |  ||| | | |||   | |       |  | |  |  |  | |  |||                      
TGTACTGGATGCACTATTCCCCTCAGTTCTGGGAGGCACTTGTGCTATTCCAGGGGCATTTGGTTGTGGTAAAACTGTCATTAGTCAGGCACTTTCCAAGgtgatttctcctcaccctttactactgctccatatgttgtagctgtacatattttttcttttttattgtcctgatggt-ctcatctagcttcccctaatgttatctgcag

upper sequence: AT1G78900.2 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: GLYMA07G00430.1 (Glycine max), 5'ss of exon 10
TGTTCTTGATGCCCTTTTCCCTTCTGTTCTTGGTGGAACCTGTGCCATTCCTGGTGCTTTTGGCTGTGGGAAAACTGTTATCAGTCAGGCACTTTCCAAGgt-accttgtgacactctctggttttgttccatttaattactggatagattgaatttccaaagctaactttttctt--atttacatag--
||||||||||||||||||||| || |||||||| || || ||||||||||||||||||||||| ||||| ||||| || || |||||||| ||||| ||||| | |||   |||| ||          |  ||||  | | || | | |||    | |  ||   | |||||||    |   || |    
TGTTCTTGATGCCCTTTTCCCCTCAGTTCTTGGCGGGACTTGTGCCATTCCTGGTGCTTTTGGTTGTGGTAAAACAGTCATTAGTCAGGCTCTTTCTAAGgtgaacttaaaacaccctaataagacaatg-attttttaattgtagatatt---ctccttaattcatctttttcccccaaccacttgcag

upper sequence: AT1G78900.2 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: GLYMA08G23990.1 (Glycine max), 5'ss of exon 10
TGTTCTTGATGCCCTTTTCCCTTCTGTTCTTGGTGGAACCTGTGCCATTCCTGGTGCTTTTGGCTGTGGGAAAACTGTTATCAGTCAGGCACTTTCCAAGgt-accttgtgacactctctggttttgttccatttaattactggatagattgaatttccaaagctaactttttcttatttacatag--------------
||||||||||||||||||||| || |||||||| || || |||||||| ||||| |||||||| ||||| |||||||| || |||||||| ||||| ||||| | |||   | || || |        |  ||||  | | || | | |||    | |  ||   | ||||||| |     ||                 
TGTTCTTGATGCCCTTTTCCCCTCAGTTCTTGGCGGGACTTGTGCCATACCTGGAGCTTTTGGTTGTGGTAAAACTGTCATTAGTCAGGCTCTTTCTAAGgtgaacttaatataccctattaaaacaata-attttttaattgaagatatt---ctccgtaattcatctttttcctccacccacccccctgttttggcag

upper sequence: AT1G78900.2 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: Vv09s0054g00890.t01 (Vitis vinifera), 5'ss of exon 10
TGTTCTTGATGCCCTTTTCCCTTCTGTTCTTGGTGGAACCTGTGCCATTCCTGGTGCTTTTGGCTGTGGGAAAACTGTTATCAGTCAGGCACTTTCCAAGgtaccttgtgacactctctggttttgttccatttaattactggatagattgaatttccaaagctaactttttcttatttacatag--------------------------------
|||||||||||||||||||||||||||||| |||||||| |||||||| ||||| || ||||| ||||| ||||| || |||||||| || ||||| |||||    | || |  |   |   || |  |||   |     ||   | |||   |     ||  |    ||| |||||| |  | |                                
TGTTCTTGATGCCCTTTTCCCTTCTGTTCTCGGTGGAACTTGTGCCATACCTGGGGCATTTGGTTGTGGAAAAACAGTCATCAGTCAAGCTCTTTCTAAGgtgagct-tgtcttttattcacttgggaccagacatcctttgacaatattaggtgctacaaatt---ctttccttattcatcttgtacttaaatgttgtgtgtacatgtacatgcag

upper sequence: AT1G78900.2 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: Vv04s0008g02580.t01 (Vitis vinifera), 5'ss of exon 10
TGTTCTTGATGCCCTTTTCCCTTCTGTTCTTGGTGGAACCTGTGCCATTCCTGGTGCTTTTGGCTGTGGGAAAACTGTTATCAGTCAGGCACTTTCCAAGgtaccttgtgacactctctggttttgttccatttaattactggatagattgaatttccaaagctaactttttcttatttacatag-----------------
|||||| ||||| || || || || || || ||||| || ||||| |||||||| || ||||||||||||||||| || |||||||| || |||||||||||   || |  || |   |   |  | |    ||  | |   | | ||   ||||     | || | | |     |||  ||||                  
TGTTCTCGATGCTCTCTTTCCCTCAGTCCTGGGTGGGACTTGTGCAATTCCTGGGGCATTTGGCTGTGGGAAAACAGTCATCAGTCAAGCTCTTTCCAAGgtgtatt-tctcatttgtttactaggcttttgtttttaatatgttggaaataattcttctatctcagtctcatgcattagcataacatctactcatttgcag

upper sequence: AT1G78900.2 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: PP1S44_102V6.1 (Physcomitrella patens), 5'ss of exon 10
TGTTCTTGATGCCCTTTTCCCTTCTGTTCTTGGTGGAACCTGTGCCATTCCTGGTGCTTTTGGCTGTGGGAAAACTGTTATCAGTCAGGCACTTTCCAAGgtaccttgtgaca-ctctctggttttgttccatttaattactggatagattgaatttccaaagctaactttttcttatttacatag------------------------------------------------------------------------------
| | || ||||| || ||||||||||||||||| || || || |||||||||||||| ||||| ||||| || ||||| || ||||| || || || ||||||  | || ||| || | ||| ||| |   | || ||| |     | |     ||||     ||    |||  || | ||  ||                                                                               
TATACTGGATGCTCTATTCCCTTCTGTTCTTGGAGGTACTTGCGCCATTCCTGGTGCATTTGGATGTGGAAAGACTGTCATTAGTCAAGCGCTCTCTAAGgtagttggttacatctgtttggatttttcgaagttcatttcgcatcatacattttttctttttcttttctttggttgtgtatttaagctgcagaaactattgtttgaagtttgtatgaaagttctggaacgaggcttattttttgcaaatttgtttgtgtgcag

upper sequence: AT1G78900.2 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: PP1S8_312V6.1 (Physcomitrella patens), 5'ss of exon 10
TGTTCTTGATGCCCTTTTCCCTTCTGTTCTTGGTGGAACCTGTGCCATTCCTGGTGCTTTTGGCTGTGGGAAAACTGTTATCAGTCAGGCACTTTCCAAGgtaccttgtgacactctctggttttgttccatttaattactggatagattgaatttccaaagctaactt--tttcttatttacatag-----------------------------------------------------------
| |||| ||||| || || || ||||| || || || |||||||| ||||||||||| || || ||||||||||| ||||| |||||||| || || |||||   | |   |||  | | || ||     |  || | |         ||   || ||| |  | | |   ||  | |  | || |                                                            
TATTCTGGATGCTCTATTTCCATCTGTCCTCGGAGGTACCTGTGCAATTCCTGGTGCGTTCGGTTGTGGGAAAACAGTTATTAGTCAGGCTCTGTCAAAGgtgattggcttcaccttattgtgtttggagacatagtaaagcatcgtctttgtttaccataatttattgggttgataagctgcagatactgcgagctgtcacgatttccttgaaatggttctaattttatgtgctgctgtgtgcag

upper sequence: AT1G78900.2 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: PP1S10_201V6.1 (Physcomitrella patens), 5'ss of exon 10
TGTTCTTGATGCCCTTTTCCCTTCTGTTCTTGGTGGAACCTGTGCCATTCCTGGTGCTTTTGGCTGTGGGAAAACTGTTATCAGTCAGGCACTTTCCAAGgtaccttgtgaca-ctctctggttttgttccatttaatt--actggatag-attgaatttccaaagct---aactttttcttatttacatag----------------------------------------------
  | || ||||| || || || ||||| ||||| || ||||| |||||||||||||| ||||| |||||||| || || |||||||| |||||||| ||||||  | ||  || ||   ||  ||| || ||||| |||  | |  || | ||   | |||    | |   |  | | | ||   | || |                                               
AATACTGGATGCTCTGTTTCCGTCTGTCCTTGGAGGTACCTGCGCCATTCCTGGTGCATTTGGTTGTGGGAAGACCGTCATCAGTCAAGCACTTTCTAAGgtagttggttgcaactgattgaattttttgcatttcatttcatttcatgggatcttagttctgtggtttttacttatgtttttcctgcaaaagtggtgttggtaatgacactcgactcatttaattgtttttgcgcag

upper sequence: AT1G78900.2 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: EFJ30330 (Selaginella moellendorffii), 5'ss of exon 10
TGTTCTTGATGCCCTTTTCCCTTCTGTTCTTGGTGGAACCTGTGCCATTCCTGGTGCTTTTGGCTGTGGGAAAACTGTTATCAGTCAGGCACTTTCCAAGgtaccttgtgacactctctggttt-tgttccatttaattactggatagattgaatttccaaagctaactttttcttatttacatag
  || | ||||| || || ||||| || || || ||||| ||||| ||||| || || ||||||||||| || || ||||| |||||||| ||||| ||||||  | | |    | | |  |   ||    | ||  | |    | ||                                      
CATTTTGGATGCGCTGTTTCCTTCCGTGCTGGGGGGAACGTGTGCTATTCCGGGAGCATTTGGCTGTGGAAAGACCGTTATTAGTCAGGCGCTTTCGAAGgtatttggagttcttttgtaatgcgtgactaactttgtcatgaaacag--------------------------------------

upper sequence: AT1G78900.2 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: EFJ33015 (Selaginella moellendorffii), 5'ss of exon 9
TGTTCTTGATGCCCTTTTCCCTTCTGTTCTTGGTGGAACCTGTGCCATTCCTGGTGCTTTTGGCTGTGGGAAAACTGTTATCAGTCAGGCACTTTCCAAGgtaccttgtgacactctctggttt-tgttccatttaattactggatagattgaatttccaaagctaactttttcttatttacatag
  || | ||||| || || ||||| || || || ||||||||||| ||||| || || ||||||||||| || || ||||| |||||||| ||||| ||||||  | | |    | | |  |   ||    | ||  | |    | ||                                      
CATTTTGGATGCTCTGTTTCCTTCCGTGCTAGGGGGAACCTGTGCTATTCCGGGAGCATTTGGCTGTGGAAAGACCGTTATTAGTCAGGCGCTTTCGAAGgtatttggagttcatttgtaatgcgtgactgactttgtcatgaaacag--------------------------------------

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|116482299|gb|EG524891.1|EG524891
EST:     CTGGTGCTTTTGGCTGTGGGAAAACTGTTATCAGTCAGGCACTTTCCAAG                         TACTCCAACTCTGATGCTGTTGTGTATGTTGGTTGTGGAGAGAGAGGAAAT
genomic: CTGGTGCTTTTGGCTGTGGGAAAACTGTTATCAGTCAGGCACTTTCCAAGgtaccttgtg ... atttacatagTACTCCAACTCTGATGCTGTTGTGTATGTTGGTTGTGGAGAGAGAGGAAAT
EST: gi|116463788|gb|EG506380.1|EG506380
EST:     TGGTGCTTTTGGCTGTGGGAAAACTGTTATCAGTCAGGCACTTTCCCAAG                         TACTCCAACTCTGATGCTGTTGTGTATGTTGGTTGTGGAGAGAGAGGAAA
genomic: TGGTGCTTTTGGCTGTGGGAAAACTGTTATCAGTCAGGCACTTT-CCAAGgtaccttgtg ... atttacatagTACTCCAACTCTGATGCTGTTGTGTATGTTGGTTGTGGAGAGAGAGGAAA