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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaccaataagttgtcatttcaagacttttgtgaaacagtagttattgttgtcctgattactgattataaatcgctactgtgggttttcttaacagCTATGTGAACGCCTCCCCAGCCCAATGGGAGAGTCTGCAGTTGACTGTGCACAACTGTCAACAATGCCCACTGTTTCACTTACCATTGGAGGCAAAGTAT

Basic information

species Arabidopsis thaliana
transcript AT1G11910.1
intron # 11
splice site 3'
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|86076971|gb|DR372728.1|DR372728
EST:     AGCGCATATTGAACTACGTCAACGAG                         CTATGTGAACGCCTCCCCAGCCCAATGGGAGAGTCTGCAGTTGACTGTGCA
genomic: AGCGCATATTGAACTACGTCAACGAGgtaaccaata ... ttcttaacagCTATGTGAACGCCTCCCCAGCCCAATGGGAGAGTCTGCAGTTGACTGTGCA
EST: gi|47832120|gb|CK121804.1|CK121804
EST:     AGTTGAGGCAAAACATGACTCAAGAGCGCATATTGAACTACGTCAACGAG                         CTATGTGAACGCCTCCCCAGCCCAATGGGAGAGTCTGCAGTTGACTGTGCA
genomic: AGTTGAGGCAAAACATGACTCAAGAGCGCATATTGAACTACGTCAACGAGgtaaccaata ... ttcttaacagCTATGTGAACGCCTCCCCAGCCCAATGGGAGAGTCTGCAGTTGACTGTGCA
EST: gi|116410551|gb|EG453143.1|EG453143
EST:     AGTTGAGGCAAAACATGACTCAAGAGCGCATATTGAACTACGTCAACGAG                         CTATGTGAACGCCTCCCCAGCCCAATGGGAGAGTCTGCAGTTGACTGTGCA
genomic: AGTTGAGGCAAAACATGACTCAAGAGCGCATATTGAACTACGTCAACGAGgtaaccaata ... ttcttaacagCTATGTGAACGCCTCCCCAGCCCAATGGGAGAGTCTGCAGTTGACTGTGCA
EST: gi|116484531|gb|EG527123.1|EG527123
EST:     AGTTGAGGCAAAACATGACTCAAGAGCGCATATTGAACTACGTCAACGAG                         CTATGTGAACGCCTCCCCAGCCCAATGGGAGAGTCTGCAGTTGACTGTGCA
genomic: AGTTGAGGCAAAACATGACTCAAGAGCGCATATTGAACTACGTCAACGAGgtaaccaata ... ttcttaacagCTATGTGAACGCCTCCCCAGCCCAATGGGAGAGTCTGCAGTTGACTGTGCA
EST: gi|116484523|gb|EG527115.1|EG527115
EST:     TGAACTACGTCAACGAG                         CTATGTGAACGCCTCCCCAGCCCAATGGGAGAGTCTGCAGTTGACTGTGCA
genomic: TGAACTACGTCAACGAGgtaaccaata ... ttcttaacagCTATGTGAACGCCTCCCCAGCCCAATGGGAGAGTCTGCAGTTGACTGTGCA
EST: gi|116389504|gb|EG432096.1|EG432096
EST:     AGTTGAGGCAAAACATGACTCAAGAGCGCATATTGAACTACGTCAACGAG                         CTATGTGAACGCCTCCCCA
genomic: AGTTGAGGCAAAACATGACTCAAGAGCGCATATTGAACTACGTCAACGAGgtaaccaata ... ttcttaacagCTATGTGAACGCCTCCCCA
EST: gi|116417009|gb|EG459601.1|EG459601
EST:     AGTTGAGGCAAAACATGACTCAAGAGCGCATATTGAACTACGTCAACGAG                         CTATGTGAACGCCTCCCCAGCCCAATGGGAGAGTCTGCAGTTGACTGTGCA
genomic: AGTTGAGGCAAAACATGACTCAAGAGCGCATATTGAACTACGTCAACGAGgtaaccaata ... ttcttaacagCTATGTGAACGCCTCCCCAGCCCAATGGGAGAGTCTGCAGTTGACTGTGCA
EST: gi|86075703|gb|DR371460.1|DR371460
EST:     AGTTGAGGCAAAACATGACTCAAGAGCGCATATTG-AMTACGTCAACGAG                         CTATGTGAACGCCTCCCCAGCCCAATGGGAGAGTCTGCAGTTGACTGTGCA
genomic: AGTTGAGGCAAAACATGACTCAAGAGCGCATATTGAACTACGTCAACGAGgtaaccaata ... ttcttaacagCTATGTGAACGCCTCCCCAGCCCAATGGGAGAGTCTGCAGTTGACTGTGCA
EST: gi|116410552|gb|EG453144.1|EG453144
EST:     AGTTGAGGCAAAACATGACTCAAGAGCGCATATTGAACTACGTCAACGAG                         CTATGTGAACGCCTCCCCAGCCCAATGGGAGAGTCTGCAGTTGACTGTGCA
genomic: AGTTGAGGCAAAACATGACTCAAGAGCGCATATTGAACTACGTCAACGAGgtaaccaata ... ttcttaacagCTATGTGAACGCCTCCCCAGCCCAATGGGAGAGTCTGCAGTTGACTGTGCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttattgttgtcctgattactgattataaatcgctactgtgggttttcttaacagCTATGTGAACGCCTCCCCAGCCCAATGGGAGAGTCTGCAGTTGACTGTGCACAACTGTCAACAATGCCCACTGTTTCACTTACCATTGGAGGCAAAGTAT
                 tactgat  putative branch site (score: 2)
                                           ttttctt  putative PPT
               attactgattataaat  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaccaataagttgtcatttcaagacttttgtgaaacagtagttattgttgtcctgattactgattataaatcgctactgtgggttttcttaacagCTATGTGAACGCCTCCCCAGCCCAATGGGAGAGTCTGCAGTTGACTGTGCACAACTGTCAACAATGCCCACTGTTTCACTTACCATTGGAGGCAAAGTAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG