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

gtatagccttcttagagattaatctttttcaggttttgtatctaaatactagaagtttaactgagacatgaaaatattgcagTCGGAAGCGGAACTGTTGGCTGAGAAGAGATGTGTTGCACACCTCACTGGAGAG

Basic information

species Arabidopsis thaliana
transcript AT5G58330.2
intron # 10
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|86080979|gb|DR376736.1|DR376736
EST:     TTGTCAAGGATGTAGAAATTGATGACTACCTTCGCCAACGAATCGCCAAG                         TCGGAAGCGGAACTGTTGGCTGAGAAGAGATGTGTTGCACACCTCACTGGA
genomic: TTGTCAAGGATGTAGAAATTGATGACTACCTTCGCCAACGAATCGCCAAGgtatagcctt ... aatattgcagTCGGAAGCGGAACTGTTGGCTGAGAAGAGATGTGTTGCACACCTCACTGGA
EST: gi|124868672|gb|EH953109.1|EH953109
EST:     TAGAAATTGATGACTACCTTCGCCAACGAATCGCCAAG                         TCGGAAGCGGAACTGTTGGCTGAGAAGAGATGTGTTAGCACACCTCACTGG
genomic: TAGAAATTGATGACTACCTTCGCCAACGAATCGCCAAGgtatagcctt ... aatattgcagTCGGAAGCGGAACTGTTGGCTGAGAAGAGATGTGTT-GCACACCTCACTGG
EST: gi|86078149|gb|DR373906.1|DR373906
EST:     TTGTCAAGGATGTAGAAATTGATGACTACCTTCGCCAACGAATCGCCAAG                         TCGGAAGCGGAACTGTTGGCTGAGAAGAGATGTGTTGCACACCTCACTGGA
genomic: TTGTCAAGGATGTAGAAATTGATGACTACCTTCGCCAACGAATCGCCAAGgtatagcctt ... aatattgcagTCGGAAGCGGAACTGTTGGCTGAGAAGAGATGTGTTGCACACCTCACTGGA
EST: gi|86081501|gb|DR377258.1|DR377258
EST:     TTGTCAAGGATGTAGAAATTGATGACTACCTTCGCCAACGAATCGCCAAG                         TCGGAAGCGGAACTGTTGGCTGAGAAGAGATATGTTGCAC-C-TCACTGGA
genomic: TTGTCAAGGATGTAGAAATTGATGACTACCTTCGCCAACGAATCGCCAAGgtatagcctt ... aatattgcagTCGGAAGCGGAACTGTTGGCTGAGAAGAGATGTGTTGCACACCTCACTGGA
EST: gi|116454053|gb|EG496645.1|EG496645
EST:     TTGTCAAGGATGTAGAAATTGATGACTACCTTCGCCAACGAATCGCCAAG                         TCGGAAGCGGAACTGTTGGCTGAGAAGAGATGTGTTGCACACCTCACTGGA
genomic: TTGTCAAGGATGTAGAAATTGATGACTACCTTCGCCAACGAATCGCCAAGgtatagcctt ... aatattgcagTCGGAAGCGGAACTGTTGGCTGAGAAGAGATGTGTTGCACACCTCACTGGA
EST: gi|164022412|gb|ES116807.1|ES116807
EST:     TTGTCAAGGATGTAGAAATTGATGACTACCTTCGCCAACGAATCGCCAAG                         TCGGAAGCGGAACTGTTGGC
genomic: TTGTCAAGGATGTAGAAATTGATGACTACCTTCGCCAACGAATCGCCAAGgtatagcctt ... aatattgcagTCGGAAGCGGAACTGTTGGC
EST: gi|86087424|gb|DR383183.1|DR383183
EST:     CAAGGATGTAGAAATTGATGACTACCTTCGCCAACGAATCGCCAAG                         TCGGAAGCGGAACTGTTGGCTGAGAAGAGATGTGTTGCACACCTCACTGGA
genomic: CAAGGATGTAGAAATTGATGACTACCTTCGCCAACGAATCGCCAAGgtatagcctt ... aatattgcagTCGGAAGCGGAACTGTTGGCTGAGAAGAGATGTGTTGCACACCTCACTGGA
EST: gi|125201124|gb|EL216078.1|EL216078
EST:     CCAACGAATCGCCAAG                         TCGGAAGCGGAACTGTTGACTGAGAAGAGATGTGTTGCACACCTCACTGGA
genomic: CCAACGAATCGCCAAGgtatagcctt ... aatattgcagTCGGAAGCGGAACTGTTGGCTGAGAAGAGATGTGTTGCACACCTCACTGGA
EST: gi|222357309|gb|GH718579.1|GH718579
EST:     TTGTCAAGGATGTAGAAATTGATGACTACCTTCGCCAACGAATCGCCAAG                         TCGGAAGCGGAACTGTTGGCTGAGAAGAGATGTGTTGCACACCTCACTGGA
genomic: TTGTCAAGGATGTAGAAATTGATGACTACCTTCGCCAACGAATCGCCAAGgtatagcctt ... aatattgcagTCGGAAGCGGAACTGTTGGCTGAGAAGAGATGTGTTGCACACCTCACTGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcaggttttgtatctaaatactagaagtttaactgagacatgaaaatattgcagTCGGAAGCGGAACTGTTGGCTGAGAAGAGATGTGTTGCACACCTCACTGGAGAG
                           gtttaac  putative branch site (score: 3)
      ttttgtatctaaata  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatagccttcttagagattaatctttttcaggttttgtatctaaatactagaagtttaactgagacatgaaaatattgcagTCGGAAGCGGAACTGTTGGCTGAGAAGAGATGTGTTGCACACCTCACTGGAGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGA