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

AGTATCTAGCTTATAGTGATGGAATGAGAGTCATCGATTCCGGAAAGCTATCAAAGCAAACACCTGCTTCTGATGGTTTATTGTTTACTGAACTAGACCGgtaacgcttgtgaatttagtcatctgaaaccctttgctggcgaatttgaaaattacaaaacttaaaaacattatgttttccttgtgtag

Basic information

species Arabidopsis thaliana
transcript AT1G19660.1
intron # 8
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|116471465|gb|EG514057.1|EG514057
EST:     TCAAAGCAAACACCTGCTTCTGATGGTTTATTGTTTACTGAACTAGACCG                         GCCAAATGATCAG
genomic: TCAAAGCAAACACCTGCTTCTGATGGTTTATTGTTTACTGAACTAGACCGgtaacgcttg ... ccttgtgtagGCCAAATGGTCAG
EST: gi|125123520|gb|EL169969.1|EL169969
EST:     CAAAGCTAAACACCTGCTTCTGATGGTTTATTGTTTACTGAACTAGACCG                         GCCAAATGGTCAGCCTTGTTTTGATACAAAAGAGTTCGA
genomic: CAAAGC-AAACACCTGCTTCTGATGGTTTATTGTTTACTGAACTAGACCGgtaacgcttg ... ccttgtgtagGCCAAATGGTCAGCCTTGTTTTGATACAAAAGAGTTCGA
EST: gi|86081874|gb|DR377633.1|DR377633
EST:     TCAAAGCAAACACCTGCTTCTGATGGTTTATTGTTTACTGAACTAGACCG                         GCCAAATGGTCAGCCTTGTTTTGATACAAAAGAGTTCGATCTAGTAAGGAA
genomic: TCAAAGCAAACACCTGCTTCTGATGGTTTATTGTTTACTGAACTAGACCGgtaacgcttg ... ccttgtgtagGCCAAATGGTCAGCCTTGTTTTGATACAAAAGAGTTCGATCTAGTAAGGAA
EST: gi|164106340|gb|ES111624.1|ES111624
EST:     TCAAAGCAAACACCTGCTTCTGATGGTTTATTGTTTACTGAACTAGACCG                         GCCAAATGGTCAGCCTTGTTTTGATACAAA-GAGTTCGATCTAGT
genomic: TCAAAGCAAACACCTGCTTCTGATGGTTTATTGTTTACTGAACTAGACCGgtaacgcttg ... ccttgtgtagGCCAAATGGTCAGCCTTGTTTTGATACAAAAGAGTTCGATCTAGT
EST: gi|86080886|gb|DR376643.1|DR376643
EST:     TCAAAGCAAACACCTGCTTCTGATGGTTTATTGTTTACTGAACTAGACCG                         GCCAAATGGTCAGCCTTGTTTTGATACAAAAGAGTTCGATCTAGTAAGGAA
genomic: TCAAAGCAAACACCTGCTTCTGATGGTTTATTGTTTACTGAACTAGACCGgtaacgcttg ... ccttgtgtagGCCAAATGGTCAGCCTTGTTTTGATACAAAAGAGTTCGATCTAGTAAGGAA
EST: gi|86085098|gb|DR380857.1|DR380857
EST:     TCAAAGCAAACACCTGCTTCTGATGGTTTATTGTTTACTGAACTAGACCG                         GCCAAATGGTCAGCCTTGTTTTGATACAAAAGAGTTCGATCTAGTAAGGAA
genomic: TCAAAGCAAACACCTGCTTCTGATGGTTTATTGTTTACTGAACTAGACCGgtaacgcttg ... ccttgtgtagGCCAAATGGTCAGCCTTGTTTTGATACAAAAGAGTTCGATCTAGTAAGGAA
EST: gi|124982765|gb|EL055547.1|EL055547
EST:     TGAACTAGACCG                         GCCAAATGGTCAGCCTTGTTTTGATACAAAAGAGTTCGATCTAGTAAGGAA
genomic: TGAACTAGACCGgtaacgcttg ... ccttgtgtagGCCAAATGGTCAGCCTTGTTTTGATACAAAAGAGTTCGATCTAGTAAGGAA
EST: gi|152034732|gb|BP835572.2|BP835572
EST:     TCAAAGCAAACACCTGCTTCTGATGGTTTATTGTTTACTGAACTAGACCG                         GCCAAATGGTCAGCCTTGTTTTGATACAAAAGAGTTCGATCTAGTAAGGAA
genomic: TCAAAGCAAACACCTGCTTCTGATGGTTTATTGTTTACTGAACTAGACCGgtaacgcttg ... ccttgtgtagGCCAAATGGTCAGCCTTGTTTTGATACAAAAGAGTTCGATCTAGTAAGGAA
EST: gi|164231153|gb|ES038569.1|ES038569
EST:     TCAAAGCAAACACCTGCTTCTGATGGTTTATTGTTTACTGAACTAGACCG                         GCCAAATGGTCAGCCTTGTTTTGATACAAAAGAGTTCGATCTAGT
genomic: TCAAAGCAAACACCTGCTTCTGATGGTTTATTGTTTACTGAACTAGACCGgtaacgcttg ... ccttgtgtagGCCAAATGGTCAGCCTTGTTTTGATACAAAAGAGTTCGATCTAGT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AGTATCTAGCTTATAGTGATGGAATGAGAGTCATCGATTCCGGAAAGCTATCAAAGCAAACACCTGCTTCTGATGGTTTATTGTTTACTGAACTAGACCGgtaacgcttgtgaatttagtcatctgaaaccctttgctggcgaatttgaaaattacaaaacttaaaaacattatgttttccttgtgtag

- - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCAA