Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttcttgtttcttgagatctatggctgtttttgttgttactagcttaaagggtttcatgagttcatgattgtgttttgtctctggatcagTTCATTGGTGCTTGCAAGGAGCCTGTAATGGTGATAGTTACAGAACTTCTTCAAGGCGGTACATTGCGTAAATATCTATTAAACTTGAGACCCGCATGTT

Basic information

species Arabidopsis thaliana
transcript AT5G50180.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G50180.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA04G36210.1 (Glycine max), 3'ss of exon 2
---------------------------------------------------------------gttcttgtttcttgagatctatggctgtttttgttgttactagcttaaagggtttcatgagttcatgattgtgttttgtctctggatcagTTCATTGGTGCTTGCAAGGAGCCTGTAATGGTGATAGTTACAGAACTTCTTCAAGGCGGTACATTGCGTAAATATCTATTAAACTTGAGACCCGCATGTT
                                                                    | | | |      |   |  |  || |  | |  | || ||  |     | || |||  ||  |     | ||| |||  || |||| ||||||||||| |||||||| |||||||||||||| || || ||  |   ||| || |||||||| || ||| |  | | | || | |||  ||| |
gtgggaatttggttaaggcttttcctgattcttataattgtgtctgtagtatgttgttgaaggaaagatatgtataatatacagggaatacttgttatatgccaagttttgaacaagtgat-agtaaatattgccactctgtttctcaat-agTTTATTGGTGCTTGTAAGGAGCCAGTAATGGTGATAGTCACTGAGCTGTTATTAGGAGGAACATTGCGCAAGTATTTGCTTAGCATGCGCCCCAAATGCT

upper sequence: AT5G50180.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA06G18730.1 (Glycine max), 3'ss of exon 2
-------------------------------------------------------------gttcttgttt-cttgagat-ctatggctgtttttgttgttactagcttaaagggtttcatgagttcatgattgtgttttgtctctggatcagTTCATTGGTGCTTGCAAGGAGCCTGTAATGGTGATAGTTACAGAACTTCTTCAAGGCGGTACATTGCGTAAATATCTATTAAACTTGAGACCCGCATGTT
                                                             |      | | | | | || | | |  |  || |  |||  | || ||  |     | || |||  ||  |     | ||| ||   | ||||| |||||||| || |||||||| |||||||||||||| || || ||  |   ||| || |||||||| || ||| | || | | || | |||  ||| |
gtgggaatttggtttaggccttccttgattcttatacttgtgtttgttgtatgttgttgaagcaaagatatgcataatatacaaggaatacttgttgtgtgccaagttttgaacaagtgat-agtaaatattgccactctgtttcccaa-cagTTTATTGGTGCGTGTAAGGAGCCAGTAATGGTGATAGTCACTGAGCTGTTATTAGGAGGAACATTGCGAAAGTATTTGTTTAGCATGCGCCCCAAATGCT
















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|86054523|gb|DR350280.1|DR350280
EST:     TTAGAGAAGTAGAAATGCTCTCACGTGTTCAACACAAGAATTTGGTCAAG                         TTCATTGGTGCTTGCAAGGAGCCTGTAATGGTGATAGTTACAGAACTTCTT
genomic: TTAGAGAAGTAGAAATGCTCTCACGTGTTCAACACAAGAATTTGGTCAAGgttcttgttt ... tctggatcagTTCATTGGTGCTTGCAAGGAGCCTGTAATGGTGATAGTTACAGAACTTCTT
EST: gi|86054520|gb|DR350277.1|DR350277
EST:     TTAGAGAAGTAGAAATGCTCTCACGTGTTCAACACAAGAATTTGGTCAAG                         TTCATTGGTGCTTGCAAGGAGCCTGTAATGGTGATAGTTA
genomic: TTAGAGAAGTAGAAATGCTCTCACGTGTTCAACACAAGAATTTGGTCAAGgttcttgttt ... tctggatcagTTCATTGGTGCTTGCAAGGAGCCTGTAATGGTGATAGTTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttactagcttaaagggtttcatgagttcatgattgtgttttgtctctggatcagTTCATTGGTGCTTGCAAGGAGCCTGTAATGGTGATAGTTACAGAACTTCTTCAAGGCGGTACATTGCGTAAATATCTATTAAACTTGAGACCCGCATGTT
                                      ttttgtctct  CT-rich tract
         ttaaa  TA-rich tract