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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgttcaaatctattgtagttgtggcttatcatcaatacagatgacttcttgattgctcttttcatatgatttcagATACCCAATTATGGAATATTTGAGAATATAAAATCTCTGAAGGAGCTAGCACAAATGCCTCAATGGACCGAGGAAAGACCTTTACGAGTTGCTACAGGAT

Basic information

species Arabidopsis thaliana
transcript AT1G09795.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G09795.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA19G36070.1 (Glycine max), 3'ss of exon 4
--------------gtacgtt-caaatctattgtagttgtggcttatcatcaatacagatgacttcttgattgctcttttca-tatgatttcagATACCCAATTATGGAATATTTGAGAATATAAAATCTCTGAAGGAGCTAGCACAAATGCCTCAATGGACCGAGGAAAGACCTTTACGAGTTGCTACAGGAT
                | |||  ||| ||| |  | |     | | |||    |    |  |    |||  ||   ||  |  | | ||||||||| ||| | |||||||||||||| ||| |||| || ||| | ||||| ||| |||||||||||||||| || ||||  ||| ||||||||||||| || |
gtgagttaaaattatgatgttgtaaagctactagattctgctcctgtcagtgttttgtacaatcaattgtctggagttccctctgttatttcagATTCCCCAATATGGAATATTTGAAAATGTAAATTCACTGGACGAGCTTGCAAAAATGCCTCAATGGACAGAAGAAAAGCCTCTACGAGTTGCTACTGGTT

upper sequence: AT1G09795.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA03G33360.1 (Glycine max), 3'ss of exon 4
gtacgttcaaatctattgtagttgtggcttatcatcaatacagatgacttcttgattgctcttttcatatgatttcagATACCCAATTATGGAATATTTGAGAATATAAAATCTCTGAAGGAGCTAGCACAAATGCCTCAATGGACCGAGGAAAGACCTTTACGAGTTGCTACAGGAT
||  ||| |||| |||  |  |  | | || |  ||  |     ||  || |  |       ||   | | ||||||||| ||| | |||||||||||||| ||| |||| ||  || | ||||| ||| |||||||||||||||| || ||||  ||| ||||||||||||| || |
gtgagtttaaat-tatgatgttactagattctgctcc-tgtcattgttttgt--acaatcaattgtctgttatttcagATTCCCCAATATGGAATATTTGAAAATGTAAATTCAGTGGACGAGCTTGCAAAAATGCCTCAATGGACAGAAGAAAAGCCTCTACGAGTTGCTACTGGTT

upper sequence: AT1G09795.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: Vv12s0035g00760.t01 (Vitis vinifera), 3'ss of exon 4
-----------gtacgttcaaatctattgtagt-tgtggcttat-catcaatacagatgacttcttgattgctcttttcatatgatttcagATACCCAATTATGGAATATTTGAGAATATAAAATCTCTGAAGGAGCTAGCACAAATGCCTCAATGGACCGAGGAAAGACCTTTACGAGTTGCTACAGGAT
            ||  ||   ||  | |  ||| ||   || |   ||   ||  | |||    || |||      ||| |    |||||||| ||||| ||||| || |||||||||||||| || |||||||| ||||| ||||||||||||||||| |   | | |||| | ||||||||||| || |
gtaagtcattaatatctttgtatacagtcaagtgtggcactcagatattgttattgctgatacttttattttgtcattctt---ttttcagATTCCCAAATATGGGATTTTTGAGAATATAAACTCACTGAAGGAACTAGCGCAAATGCCTCAATGGACTGTTCAGAAACCTCTCCGAGTTGCTACTGGTT

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|124768717|gb|EH858847.1|EH858847
EST:     AACTTTGGAGATTGTCATCTCTCCCTTGCC                         ATACCCAATTATGGAATATTTGAGAATATAAAATCTCTGAAGGAGCTAGCA
genomic: AACTTTGGAGATTGTCATCTCTCCCTTGCCgtacgttcaa ... atgatttcagATACCCAATTATGGAATATTTGAGAATATAAAATCTCTGAAGGAGCTAGCA
EST: gi|125046229|gb|EL118498.1|EL118498
EST:     TCATTGTCCACGAAGCTCTCAACTT-GGAGATTGTCATCTCTCCCTTGCC                         ATACCCAATTATGGAATATT
genomic: TCATTGTCCACGAAGCTCTCAACTTTGGAGATTGTCATCTCTCCCTTGCCgtacgttcaa ... atgatttcagATACCCAATTATGGAATATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtggcttatcatcaatacagatgacttcttgattgctcttttcatatgatttcagATACCCAATTATGGAATATTTGAGAATATAAAATCTCTGAAGGAGCTAGCACAAATGCCTCAATGGACCGAGGAAAGACCTTTACGAGTTGCTACAGGAT
                          tcttgat  putative branch site (score: 4)
                                      ttttcatatgattt  TA-rich tract