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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aaagagcaatgagatggaactggcgattacttgcatactaaagattttgcttatgaatatggattgaactgagtttaaccctgttgagccctatcaacagTTGAAATGTGCTCAAGTTCTTATCGATGCTGGAGCAAGTGTTAATGCGGTTGACAAAAACAAGAACACACCTCTGCATTATGCTGCTGGTTACGGGAGGA

Basic information

species Arabidopsis thaliana
transcript AT4G35450.3
intron # 7
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|86084823|gb|DR380582.1|DR380582
EST:     MAGATTCTGAAGGAAGGACAGCATTGCATTTTGCTTGTGGATACGGCGAG                         TTGAAATGTGCTCAAGTTCTTAYCGATGCTGGAGCAAGTGTTAATGCGGTT
genomic: AAGATTCTGAAGGAAGGACAGCATTGCATTTTGCTTGTGGATACGGCGAGgtatgcaatt ... ctatcaacagTTGAAATGTGCTCAAGTTCTTATCGATGCTGGAGCAAGTGTTAATGCGGTT
EST: gi|86079360|gb|DR375117.1|DR375117
EST:     AAGATTCTGAAGGAAGGACAGCATTGCATTTTGCTTGTGGATACGGCGAG                         TTGAAATGTGCTCAAGTTCTTATCGATGCTGGAGCAAGTGTTAATGCGGTT
genomic: AAGATTCTGAAGGAAGGACAGCATTGCATTTTGCTTGTGGATACGGCGAGgtatgcaatt ... ctatcaacagTTGAAATGTGCTCAAGTTCTTATCGATGCTGGAGCAAGTGTTAATGCGGTT
EST: gi|125258107|gb|EL272192.1|EL272192
EST:     AAGATTCTGAAGGAAGGACAGCATTGCATTTTGCTTGTGGATACGGCGAG                         TTGAAATGTGCTCAAGTTCTTATCGATG
genomic: AAGATTCTGAAGGAAGGACAGCATTGCATTTTGCTTGTGGATACGGCGAGgtatgcaatt ... ctatcaacagTTGAAATGTGCTCAAGTTCTTATCGATG
EST: gi|125298353|gb|EL312438.1|EL312438
EST:     GGAAGGACAGCATTGCATTTTGCTTGTGGATACGGCGAG                         TTGAAATGTGCTCAAGTTCTTAATCGATGCTGGAGCAAGTGTTAATGCGGT
genomic: GGAAGGACAGCATTGCATTTTGCTTGTGGATACGGCGAGgtatgcaatt ... ctatcaacagTTGAAATGTGCTCAAGTTCTTA-TCGATGCTGGAGCAAGTGTTAATGCGGT
EST: gi|124940978|gb|EL017377.1|EL017377
EST:     AAGATTCTGAAGGAAGGACAGCATTGCATTTTGCTTGTGGATACGGCGAG                         TTGAAATGTGCTCAAGTTCTTATCGATG
genomic: AAGATTCTGAAGGAAGGACAGCATTGCATTTTGCTTGTGGATACGGCGAGgtatgcaatt ... ctatcaacagTTGAAATGTGCTCAAGTTCTTATCGATG
EST: gi|86079639|gb|DR375396.1|DR375396
EST:     AAGATTCTG-AGGAAGGACAGCATTGCATTTTGCTTGTGGATACGGCGAG                         TTGAAATGTGCTCAAGTTCTTATCGATGCTGGAGCAAGTGTTAATGCGGTT
genomic: AAGATTCTGAAGGAAGGACAGCATTGCATTTTGCTTGTGGATACGGCGAGgtatgcaatt ... ctatcaacagTTGAAATGTGCTCAAGTTCTTATCGATGCTGGAGCAAGTGTTAATGCGGTT
EST: gi|124978422|gb|EL051602.1|EL051602
EST:     AAGATTCTGAAGGAAGGACAGCATTGCATTTTGCTTGTGGATACGGCGAG                         TTGAAATGTGCTCTAGTTCTTATCGATGCTGGAGCAAGTG
genomic: AAGATTCTGAAGGAAGGACAGCATTGCATTTTGCTTGTGGATACGGCGAGgtatgcaatt ... ctatcaacagTTGAAATGTGCTCAAGTTCTTATCGATGCTGGAGCAAGTG
EST: gi|164063866|gb|ES004333.1|ES004333
EST:     AAGATTCTGAAGGAAGGACAGCATTGCATTTTGCTTGTGGATACGGCGAG                         TTGAAATGTGCTCAAGTTCTTATCGATGC
genomic: AAGATTCTGAAGGAAGGACAGCATTGCATTTTGCTTGTGGATACGGCGAGgtatgcaatt ... ctatcaacagTTGAAATGTGCTCAAGTTCTTATCGATGC
EST: gi|86081367|gb|DR377124.1|DR377124
EST:     AAGATTCTGAAGGAAGGACAGCATTGCATTTTGCTTGTGGATACGGCGAG                         TTGAAATGTGCTCAAGTTCTTATCGATGCTGGAGCAAGTGTTAATGCGGTT
genomic: AAGATTCTGAAGGAAGGACAGCATTGCATTTTGCTTGTGGATACGGCGAGgtatgcaatt ... ctatcaacagTTGAAATGTGCTCAAGTTCTTATCGATGCTGGAGCAAGTGTTAATGCGGTT
EST: gi|125075887|gb|EL139259.1|EL139259
EST:     CATTTTGCTTGTTGGATACGGCGAG                         TTGAAATGTGCTCAAGTTCTTATCGATGCTGGAGCAAGTGTTAATGCGGTT
genomic: CATTTTGCTTG-TGGATACGGCGAGgtatgcaatt ... ctatcaacagTTGAAATGTGCTCAAGTTCTTATCGATGCTGGAGCAAGTGTTAATGCGGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttgcttatgaatatggattgaactgagtttaaccctgttgagccctatcaacagTTGAAATGTGCTCAAGTTCTTATCGATGCTGGAGCAAGTGTTAATGCGGTTGACAAAAACAAGAACACACCTCTGCATTATGCTGCTGGTTACGGGAGGA
                           gtttaac  putative branch site (score: 3)
                                           ccctatc  putative PPT
     ttatgaatat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aaagagcaatgagatggaactggcgattacttgcatactaaagattttgcttatgaatatggattgaactgagtttaaccctgttgagccctatcaacagTTGAAATGTGCTCAAGTTCTTATCGATGCTGGAGCAAGTGTTAATGCGGTTGACAAAAACAAGAACACACCTCTGCATTATGCTGCTGGTTACGGGAGGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA