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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagatctgttataattgtcttattcaaagattttttcgaaatgttcaaacttggtttgacccttctatccactaatcagCTCCGTGGACTTTTGATCCTGCACTACTGCTTAACTGTTTAAAGAAGCTGAAAAACGAG

Basic information

species Arabidopsis thaliana
transcript AT1G03030.1
intron # 6
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|164233354|gb|EL988282.1|EL988282
EST:     GATCCCAAAGAAGCCCATGCGAGAAGAGGGG                         CTCCGTGGACTTTTGATCCTGCACTACTGCTTAAC
genomic: GATCCCAAAGAAGCCCATGCGAGAAGAGGGGgtgagatctg ... cactaatcagCTCCGTGGACTTTTGATCCTGCACTACTGCTTAAC
EST: gi|164029696|gb|ES082538.1|ES082538
EST:     GATCCCAAAGAAGCCCATGCGAGAAGAGGGG                         CTCCGTGGACTTTTGATCCTGCACTACTGCTT
genomic: GATCCCAAAGAAGCCCATGCGAGAAGAGGGGgtgagatctg ... cactaatcagCTCCGTGGACTTTTGATCCTGCACTACTGCTT
EST: gi|86085201|gb|DR380960.1|DR380960
EST:     GCGAGAAGAGGGG                         CTCCGTGGACTTTTGATCCTGCACTACTGCTTAACTGTTTAAAGAAGCTGA
genomic: GCGAGAAGAGGGGgtgagatctg ... cactaatcagCTCCGTGGACTTTTGATCCTGCACTACTGCTTAACTGTTTAAAGAAGCTGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caaagattttttcgaaatgttcaaacttggtttgacccttctatccactaatcagCTCCGTGGACTTTTGATCCTGCACTACTGCTTAACTGTTTAAAGAAGCTGAAAAACGAG
                             gtttgac  putative branch site (score: 4)
                                   cccttctatccact  CT-rich tract
     atttttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgagatctgttataattgtcttattcaaagattttttcgaaatgttcaaacttggtttgacccttctatccactaatcagCTCCGTGGACTTTTGATCCTGCACTACTGCTTAACTGTTTAAAGAAGCTGAAAAACGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA