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'   		17  
 5'  3'   		18  
 5'  3'   		19  
 5'  3'   		20  
 5'  3'   
21  
 5'  3'   		22  
 5'  3'   		23  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGCAAGAAGATGCGACACTCTGATTCGACTGATCGAGAAAGAGAACCAGGAGTTTGATGAAAGAGAGAGGCAAGCCCGCAAAGAGAAGAAGCTCGCGAAGgtaaaataatgcaatattttcatgtataaggttgtattcttttgatttgatttctttaggtggttaatgcttttctggtttttaatctttgaag

Basic information

species Arabidopsis thaliana
transcript AT3G06400.1
intron # 23
splice site 5'
intron type U2

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|164214736|gb|ES091353.1|ES091353
EST:     GAAAGAGAGAGGCAAGCCCGCAAAGAGAAGAAGCTCGCGAAG                         AGTGCAACACCATCAAAGCGACCTT-AGGAAGACAAGCAAGTGAGAGTCCT
genomic: GAAAGAGAGAGGCAAGCCCGCAAAGAGAAGAAGCTCGCGAAGgtaaaataat ... atctttgaagAGTGCAACACCATCAAAGCGACCTTTAGGAAGACAAGCAAGTGAGAGTCCT
EST: gi|116481379|gb|EG523971.1|EG523971
EST:     AGTTTGATGAAAGAGAGAGGCAAGCCCGCAAAGAGAAGAAGCTCGCGAAG                         AGTGCAGCACCATCAAAGCGACCTTTAGGAAGACAAGCAAGTGAGAGTCCT
genomic: AGTTTGATGAAAGAGAGAGGCAAGCCCGCAAAGAGAAGAAGCTCGCGAAGgtaaaataat ... atctttgaagAGTGCAACACCATCAAAGCGACCTTTAGGAAGACAAGCAAGTGAGAGTCCT
EST: gi|124854501|gb|EH938938.1|EH938938
EST:     AGAAGAAGCTCGCGAAG                         AGTGCAACACCATCAAAGCGACCTTTAGGAAGACAAG
genomic: AGAAGAAGCTCGCGAAGgtaaaataat ... atctttgaagAGTGCAACACCATCAAAGCGACCTTTAGGAAGACAAG
EST: gi|116436611|gb|EG479203.1|EG479203
EST:     AGTTTGATGAAAGAGAGAGGCAAGCCCGCAAAGAGAAGAAGCTCGCGAAG                         AGTGCAACACCATCAAAGCGACCTTTAGGAAGACAAGCAAGTGAGAGTCCT
genomic: AGTTTGATGAAAGAGAGAGGCAAGCCCGCAAAGAGAAGAAGCTCGCGAAGgtaaaataat ... atctttgaagAGTGCAACACCATCAAAGCGACCTTTAGGAAGACAAGCAAGTGAGAGTCCT
EST: gi|125095239|gb|EL152452.1|EL152452
EST:     GTTTGATGAAAGAGAGAGGCAAGCCCGCAAAGAGAAGAAGCTCGCGAAG                         AGTGCAACACCATCAAAGCGACCTTTAGGAAGACAAGCAAGTGAGAGTCCT
genomic: GTTTGATGAAAGAGAGAGGCAAGCCCGCAAAGAGAAGAAGCTCGCGAAGgtaaaataat ... atctttgaagAGTGCAACACCATCAAAGCGACCTTTAGGAAGACAAGCAAGTGAGAGTCCT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGCAAGAAGATGCGACACTCTGATTCGACTGATCGAGAAAGAGAACCAGGAGTTTGATGAAAGAGAGAGGCAAGCCCGCAAAGAGAAGAAGCTCGCGAAGgtaaaataatgcaatattttcatgtataaggttgtattcttttgatttgatttctttaggtggttaatgcttttctggtttttaatctttgaag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC