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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAATGCCTTTGCTTCTGCATCAGCTGACAACACCAAGAAATTTAGCCTTCCAAAGGGAGAGTTCTGCCACAACATGCTgtaagtctctgctagataattatatactttgcatctccagtgcttttgaaataggagctgtcattattaattatgtaattgatgtgtttgaacaatgtttatctttttccatggaaaag

Basic information

species Arabidopsis thaliana
transcript AT4G15900.1
intron # 14
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G15900.1 (Arabidopsis thaliana), 5'ss of exon 14
lower sequence: Vv05s0077g02310.t01 (Vitis vinifera), 5'ss of exon 14
GAATGCCTTTGCTTCTGCATCAGCTGACAACACCAAGAAATTTAGCCTTCCAAAGGGAGAGTTCTGCCACAACATGCTgtaagtctctgctagataattatatactt-tgcatctccagtgcttttgaaataggagctgtcattattaattatgtaattgatgtgtttgaacaatg-tttatctttttccatggaaaag
| || | ||||| |||||||||||||||||||  ||||||||||  ||||| || || || || |  ||||||||||||| ||| |   | |   || | |||  || |  || |||| |  |    |||   ||  |   |||  |  || ||| |||    | | || | |||| ||||                  
GCATACTTTTGCATCTGCATCAGCTGACAACATAAAGAAATTTAATCTTCCGAAAGGGGAATTTTTGCACAACATGCTgtgagtttt--ccaacaaactctatgtttgtatatttccaat--taccaaaactagatatacaattgctcttt-tgtgatttgaatatatgcataatgatttaga----------------
















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|86084644|gb|DR380403.1|DR380403
EST:     AACACCAAGAAATTTAGCCTTCCAAAGGGAGAGTTCTGCCACAACAT-ST                         TTCGCAACAGAAAACCATAATTAATGCAATGGCTGTAAACGAGGATGGTGT
genomic: AACACCAAGAAATTTAGCCTTCCAAAGGGAGAGTTCTGCCACAACATGCTgtaagtctct ... catggaaaagTTCGCAACAGAAAACCATAATTAATGCAATGGCTGTAAACGAGGATGGTGT
EST: gi|116453832|gb|EG496424.1|EG496424
EST:     AACACCAAGAAATTTAGCCTTCCAAAGGGAGAGTTTTGCCACAACATGCT                         TTCGCAACAGAAAACCATAATTAATGCAATGGCTGTAAACGAGGATGGTGT
genomic: AACACCAAGAAATTTAGCCTTCCAAAGGGAGAGTTCTGCCACAACATGCTgtaagtctct ... catggaaaagTTCGCAACAGAAAACCATAATTAATGCAATGGCTGTAAACGAGGATGGTGT
EST: gi|164059149|gb|ES093416.1|ES093416
EST:     AACACCAAGAAATTTAGCCTTCCAAAGGGAGAGTTCTGCCACAACATGCT                         TTCGCAACAGAAAACCATAATTAATGCAATGGCTGTAAACGAGGATGGT
genomic: AACACCAAGAAATTTAGCCTTCCAAAGGGAGAGTTCTGCCACAACATGCTgtaagtctct ... catggaaaagTTCGCAACAGAAAACCATAATTAATGCAATGGCTGTAAACGAGGATGGT

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GAATGCCTTTGCTTCTGCATCAGCTGACAACACCAAGAAATTTAGCCTTCCAAAGGGAGAGTTCTGCCACAACATGCTgtaagtctctgctagataattatatactttgcatctccagtgcttttgaaataggagctgtcattattaattatgtaattgatgtgtttgaacaatgtttatctttttccatggaaaag

- - - - - - - - - - - - - - - - - AAGAAA