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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaacaagattataacgtgctgaaattaaaaaaaagcattagtgcgataccgagattcactgattgcttttttttttgaaacagTATGGGCTTGACACATCTGAGTTCACATACAATCCCTCAGAGTCACACCGGTTCCAGCAAATGCCAGCGCAACCAAACGAAGAAAAGGGCCGATGCACCA

Basic information

species Arabidopsis thaliana
transcript AT1G32400.2
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|124761116|gb|EH851246.1|EH851246
EST:     TATGAGGGAAAAG                         TATGGGCTTGACACATCTGAGTTCACATACAATCCCTCAGAGTCACACCGG
genomic: TATGAGGGAAAAGgtaacaagat ... tttgaaacagTATGGGCTTGACACATCTGAGTTCACATACAATCCCTCAGAGTCACACCGG
EST: gi|124988612|gb|EL060986.1|EL060986
EST:     ACCAACGCCCAAGCCGCAGTGACCCTTGGAGTGCACGTATGAGGGAAAAG                         TATGGGCTTGACACATCTGAGTTCACATACAATCCCTCAGAGTCA
genomic: ACCAACGCCCAAGCCGCAGTGACCCTTGGAGTGCACGTATGAGGGAAAAGgtaacaagat ... tttgaaacagTATGGGCTTGACACATCTGAGTTCACATACAATCCCTCAGAGTCA
EST: gi|116409429|gb|EG452021.1|EG452021
EST:     CAACGCCCAAGCCGCAGTGACCCTTGGAGTGCACGTATGAGGGAAAAG                         TATGGGCTTGACACATCTGAGTTCACATACAATCCCTCAGAGTCACACCGG
genomic: CAACGCCCAAGCCGCAGTGACCCTTGGAGTGCACGTATGAGGGAAAAGgtaacaagat ... tttgaaacagTATGGGCTTGACACATCTGAGTTCACATACAATCCCTCAGAGTCACACCGG
EST: gi|86075521|gb|DR371278.1|DR371278
EST:     ACCAACGCCCAAGCCGCAGTGACCCTTGGAGTGCACGTATGAGGGAAAAG                         TATGGGCTTGACACATCTGAGTTCACATACAATCCCTCAGAGTCACACCGG
genomic: ACCAACGCCCAAGCCGCAGTGACCCTTGGAGTGCACGTATGAGGGAAAAGgtaacaagat ... tttgaaacagTATGGGCTTGACACATCTGAGTTCACATACAATCCCTCAGAGTCACACCGG
EST: gi|124743881|gb|EH835043.1|EH835043
EST:     GACCCTTGGAGTGCACGTATGAGGGAAAAG                         TATGGGCTTGACACATCTGAGTTCACATACAATCCCTCAGAGTCACACCGG
genomic: GACCCTTGGAGTGCACGTATGAGGGAAAAGgtaacaagat ... tttgaaacagTATGGGCTTGACACATCTGAGTTCACATACAATCCCTCAGAGTCACACCGG
EST: gi|125001467|gb|EL073736.1|EL073736
EST:     AGTGACCCTTGGAGTGCACGTATGAGGGAAAAG                         TATGGGCTTGACACATCTGAGTTCACATACAATCCCTCAGAGTCACACCGG
genomic: AGTGACCCTTGGAGTGCACGTATGAGGGAAAAGgtaacaagat ... tttgaaacagTATGGGCTTGACACATCTGAGTTCACATACAATCCCTCAGAGTCACACCGG
EST: gi|125150497|gb|EL183115.1|EL183115
EST:     ACCAACGCCCAAGCCGCAGTGACCCTTGGAGTGCACGTATGAGGGAAAAG                         TATGGGCTTGACAC
genomic: ACCAACGCCCAAGCCGCAGTGACCCTTGGAGTGCACGTATGAGGGAAAAGgtaacaagat ... tttgaaacagTATGGGCTTGACAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaaaaagcattagtgcgataccgagattcactgattgcttttttttttgaaacagTATGGGCTTGACACATCTGAGTTCACATACAATCCCTCAGAGTCACACCGGTTCCAGCAAATGCCAGCGCAACCAAACGAAGAAAAGGGCCGATGCACCA
                            cactgat  putative branch site (score: 3)
                                  ttgctttttttttt  CT-rich tract
                                      ttttttttttgaaaca  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaacaagattataacgtgctgaaattaaaaaaaagcattagtgcgataccgagattcactgattgcttttttttttgaaacagTATGGGCTTGACACATCTGAGTTCACATACAATCCCTCAGAGTCACACCGGTTCCAGCAAATGCCAGCGCAACCAAACGAAGAAAAGGGCCGATGCACCA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAA