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

gtatttgcttcagttaatgttacatagatctatctgttgttgcatctacgtagacaaccaaagtctgcttgtaattggtttttaccagtattcccctaaacccatttccttgtttctgtgatttattgcagTGTTCCTGGGGAAACAAACCAACTCCATCAGGCACAGCCTCAAACCCACTTCCCCCACCAGCCCCGGCATCAGTCCCTTCTCTGTCTGCAATGGACCTCT

Basic information

species Arabidopsis thaliana
transcript AT1G54080.2
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G54080.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: LOC_Os11g40510.2 (Oryza sativa), 3'ss of exon 11
gtatttgcttcagttaatgttacatagatctatctgttgttgcatctacgtagacaaccaaagtctgcttgtaattggtttttaccagtattcccctaaacccatttccttgtttctgtgatttattgcagTGTTCCTGGGGAAACAAACCAACTCCATCAGGCACAGCCTCAAACCCACTTCCCCCACCAGCCCCGGCATCAGTCCCTTCT---CTGTCTGCAATGGACCTCT
            |  | |  |   |  | | |  | || | |    || | |||  |    |||||  || |    |||| || | |   |||  ||||||   |   |||||| ||        ||||||||||||||||||| ||| ||||||||| |||| ||||| ||    || || ||||| ||||| || ||| || ||  | ||    |||| || |  ||||   
------------gcaagttatgttttcaccgagtttttatcg----taaggagaggat-gtagtctagttat----ggttcttgcaa---ttcagctaaactt-taatcttgttcctac------ttgcagTGTTCCTGGGGAAGCAAGCCAACTCCACCAGGGACAGCATCCGCGCCCCTACCCCCTCCAGCACCAGCACCATTCAATCCTGGCATGTCGGCGACCGACC---
















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|125221401|gb|EL235486.1|EL235486
EST:     CTATTCAGATGGGCAACGCTCAGCCTTTCCTCTTTAGCAGACAGATAAGG                         TGTTCCTGGGGAAACAAACCAACTCCATCAGGCACAG
genomic: CTATTCAGATGGGCAACGCTCAGCCTTTCCTCTTTAGCAGACAGATAAGGgtatttgctt ... tttattgcagTGTTCCTGGGGAAACAAACCAACTCCATCAGGCACAG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggtttttaccagtattcccctaaacccatttccttgtttctgtgatttattgcagTGTTCCTGGGGAAACAAACCAACTCCATCAGGCACAGCCTCAAACCCACTTCCCCCACCAGCCCCGGCATCAGTCCCTTCTCTGTCTGCAATGGACCTCT
                 ccctaaa  putative branch site (score: 3)
                                          tgatttatt  TA-rich tract