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

gtaattcttcgtataaatcaaactgtacttccgcatagattgctcttcttgtattttagcatatcttatcatagtttggcatctctgtgctctctctttttctttgagttggtgttgactatatttgttcagTTACTCTGCAGCTCTACTCGCCGAAACGTCCAGCAGTTGATGTGGCTGAGGTCTTTCTTTGGCTTATGGCTGTCGGTACCATTTTATGTGCTTCTTATTG

Basic information

species Arabidopsis thaliana
transcript AT1G01650.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G01650.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA07G07610.1 (Glycine max), 3'ss of exon 4
-----------------------gtaattcttcgtataaat-----caaactgtacttccgcatagattgctct---tcttgtattttag---catatcttatcatagtttggcatctctgtgctctctctttttctttgag--ttggtgttgactatatttgttc---agTTACTCTGCAGCTCTACTCGCCGAAACGTCCAGCAGTTGATGTGGCTGAGGTCTTTCTTTGGCTTATGGCTGTCGGTACCATTTTATGTGCTTCTTATTG
                       ||   |  |  | ||| |     |    | |  ||  ||| ||     | |   | ||  | |  ||    |||| ||||    | |  | |  | |||  |   |  | ||  |||    || |  |  || ||   || ||   |||  |  | ||| | ||||| ||    ||||||   |||||||| || || || ||||| |||||||||||||| ||||||||||||  ||||||||||||
gtatgattgactttctccgagttgtctcttgttatgtaattagttacggcttttcttttggcacaggacagtttaatttttaaaataaaggcttatattttatacctgatgtggacatgtgtcttacttgatattggttgcacttttgcatgtacaattcctgctctttagTGTCCATCCAGTTATACTCTCCATTGCGTCCATTGGTTGATGTTGCGGAAGTGTTTCTGTGGCTTATGGCTGTTGGTACCATTTTAATTGCTTCTTATTG

upper sequence: AT1G01650.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA18G46760.1 (Glycine max), 3'ss of exon 4
-------gtaattcttcgtataaatcaaactgtacttccgc-atagattgctcttcttgtattttagcatatcttatcatagtt---tggcatctctgtgctctctct---ttttctttgagttggtgttgactatatttgttc---agTTACTCTGCAGCTCTACTCGCCGAAACGTCCAGCAGTTGATGTGGCTGAGGTCTTTCTTTGGCTTATGGCTGTCGGTACCATTTTATGTGCTTCTTATTG
        | | | |   | | |||    || |  ||  |  ||   |      | |  | | | |||| |  ||   |||  |   |   || |   | || | | |   | |||||||  ||  |||    ||  |    ||   |||  |  ||||| | || || ||    ||||||   |||||||| || || || ||| | |||||||||||||||||||||||| | ||||||||||| | 
ggtatgtttcactatctctgtgaatgtgtctatttttttgtgattagtcatggctttcatttgtcagcaaaatttggaataactactttatattttgattctttgtataattattctttgcttttctgtatg-tacgtccactctcaaGTGTCGGTGCAGTTGTATTCTCCACTGCGTCCATTGGTTGATGTTGCAGAAGTGTTTTTATGGCTTATGGCTGTCGGTACCATTCTCTGTGCTTCTTACT-

upper sequence: AT1G01650.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA03G01100.2 (Glycine max), 3'ss of exon 4
-----------------------gtaattcttcgtataaatca-----aactgtacttccgcatag----attgctcttcttgtattttagc--atatcttat-catagtttggcatctctgtgctctctctttttctttgagttg--gtgttgactatatttgttc---agTTACTCTGCAGCTCTACTCGCCGAAACGTCCAGCAGTTGATGTGGCTGAGGTCTTTCTTTGGCTTATGGCTGTCGGTACCATTTTATGTGCTTCTTATTG
                       ||   |  | || ||| | |        | |  ||  ||| ||    |||    || |   ||   |||  |||| ||||  ||  | ||  |  | ||   |   |  | |   |||   |   | ||  || || | || ||   |||  |  | ||| | ||||| ||    ||||||   |||||||| || || || ||| | |||||||||||||| ||||||||||||  ||||||||||||
gtatgattgactttctatgagctgtctcttgttgtgtaattaattatggtttttcttttggcacaggacaatttaatttttaaaatgacagcttatattttatatatgatgtga-acatgtgccttacttgatatcggttgcacttctgcgtgtacaatttctgctctttagTGTCAATCCAGTTATACTCTCCACTGCGTCCATTGGTTGATGTTGCGGAAGTGTTTTTGTGGCTTATGGCTGTTGGTACCATTTTAATTGCTTCTTATTG

upper sequence: AT1G01650.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA09G39500.1 (Glycine max), 3'ss of exon 4
--------gtaattcttcgtataaatcaaactgtacttccgca--tagattgctcttcttgtattttagcatatcttatcatagtt---tggcatctctgtgctctctct---ttttctttgagttggtgttgactatatttgttc---agTTACTCTGCAGCTCTACTCGCCGAAACGTCCAGCAGTTGATGTGGCTGAGGTCTTTCTTTGGCTTATGGCTGTCGGTACCATTTTATGTGCTTCTTATTG
            ||||  ||  | ||  | || | |||  |    |||  ||   ||| | | |   |||| |  ||   |||  |   |   || |   | || | | |   | |||||||  ||  ||     ||| |    ||   |||  |  ||||| | || || ||    ||||||   |||||||| || || || ||| | |||||||||||||| ||||||||| | ||||||||||| ||
gtatatttcactttctctgtgaatatgtatctattcttttgtgattagtatggctttcatttgtcacagcaaaatttgaaataactactttatattttgattctttatatgattattctttgcatttctgcatg-tatgtccactctcaagTGTCGGTGCAGTTGTATTCTCCATTGCGTCCATTGGTTGATGTTGCAGAAGTGTTTTTATGGCTTATGGCTGTTGGTACCATTCTCTGTGCTTCTTACTG

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|116450140|gb|EG492732.1|EG492732
EST:     TGTTGATGCTGGTAGAAGTCTGGAGAACATAGTCAAAAGTAACGCTATAG                         TTACTCTGCAGCTCTACTCGCCGAAACGTCCAGCAGTTGATGTGGCTGAGG
genomic: TGTTGATGCTGGTAGAAGTCTGGAGAACATAGTCAAAAGTAACGCTATAGgtaattcttc ... atttgttcagTTACTCTGCAGCTCTACTCGCCGAAACGTCCAGCAGTTGATGTGGCTGAGG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggcatctctgtgctctctctttttctttgagttggtgttgactatatttgttcagTTACTCTGCAGCTCTACTCGCCGAAACGTCCAGCAGTTGATGTGGCTGAGGTCTTTCTTTGGCTTATGGCTGTCGGTACCATTTTATGTGCTTCTTATTG
                                   tgttgac  putative branch site (score: 3)
                                              tttgttc  putative PPT
                                          tatatttgtt  TA-rich tract