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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGCGTTTTCTAAGACAGATACTGCTTCCTCTGGTACTGTGTATGAGGAGAAAGTTACAGAATTCGATTTAAGGACTATTGGATTACATAGGAGAGCAAAGgtacttgttgtagttctgcaatttcaagtttttattttgtttcttactgcagagatatctagattgtatttgaatgtaggagatttcttagagattgaga...

Basic information

species Arabidopsis thaliana
transcript AT1G53450.2
intron # 1
splice site 5'
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|116449417|gb|EG492009.1|EG492009
EST:     AAGTTACAGAATTCGATTTAAGGACTATTGGATTACATAGGAGAGCAAAG                         GGAACGGTTGAGCTATCATCAAGTTATGAAACTAGGACAAGTAGTATGGAA
genomic: AAGTTACAGAATTCGATTTAAGGACTATTGGATTACATAGGAGAGCAAAGgtacttgttg ... ctccttgtagGGAACGGTTGAGCTATCATCAAGTTATGAAACTAGGACAAGTAGTATGGAA
EST: gi|116449416|gb|EG492008.1|EG492008
EST:     AAGTTACAGAATTCGATTTAAGGACTATTGGATTACATAGGAGAGCAAAG                         GGAACGGTTGAGCTATCATCAAGTTATGAAACTAGGACAAGTAGTATGGAA
genomic: AAGTTACAGAATTCGATTTAAGGACTATTGGATTACATAGGAGAGCAAAGgtacttgttg ... ctccttgtagGGAACGGTTGAGCTATCATCAAGTTATGAAACTAGGACAAGTAGTATGGAA
EST: gi|116449423|gb|EG492015.1|EG492015
EST:     AAGTTACAGAATTCGATTTAAG-ACTATTGGATTACATAGGAGAGCAAAG                         GGAACGGTTGAGCTATCATCAAGTTATGAAACTAGGACAAGTAGTATGGAA
genomic: AAGTTACAGAATTCGATTTAAGGACTATTGGATTACATAGGAGAGCAAAGgtacttgttg ... ctccttgtagGGAACGGTTGAGCTATCATCAAGTTATGAAACTAGGACAAGTAGTATGGAA
EST: gi|116449414|gb|EG492006.1|EG492006
EST:     AAGTTACAGAATTCGATTTAAGGACTATTGGATTACATAGGAGAGCAAAG                         GGAACGGTTGAGCTATCATCAAGTTATGAAACTAGGACAAGTAGTATGGAA
genomic: AAGTTACAGAATTCGATTTAAGGACTATTGGATTACATAGGAGAGCAAAGgtacttgttg ... ctccttgtagGGAACGGTTGAGCTATCATCAAGTTATGAAACTAGGACAAGTAGTATGGAA
EST: gi|164150656|gb|ES020835.1|ES020835
EST:     AAGTTACAGAATTCGATTTAAGGACTATTGGATTACATAGGAGAGCAAAG                         GGAACGGTTGAGCTATCATCAAGTTATGAAACTAGG
genomic: AAGTTACAGAATTCGATTTAAGGACTATTGGATTACATAGGAGAGCAAAGgtacttgttg ... ctccttgtagGGAACGGTTGAGCTATCATCAAGTTATGAAACTAGG
EST: gi|116449424|gb|EG492016.1|EG492016
EST:     AAGTTACAGAATTCGATTTAAGGACTATTGGATTACATAGGAGAGCAAAG                         GGAACGGTTGAGCTATCATCAAGTTATGAAACTAGGACAAGTAGTATGGAA
genomic: AAGTTACAGAATTCGATTTAAGGACTATTGGATTACATAGGAGAGCAAAGgtacttgttg ... ctccttgtagGGAACGGTTGAGCTATCATCAAGTTATGAAACTAGGACAAGTAGTATGGAA
EST: gi|164011664|gb|ES141055.1|ES141055
EST:     AAGTTACAGAATTCGATTTAAGGACTATTGGATTACATAGGAGAGCAAAG                         GGAACGGTTGAGCTATCATCAAGTTATGAAACTAGGACAAGT
genomic: AAGTTACAGAATTCGATTTAAGGACTATTGGATTACATAGGAGAGCAAAGgtacttgttg ... ctccttgtagGGAACGGTTGAGCTATCATCAAGTTATGAAACTAGGACAAGT
EST: gi|116449418|gb|EG492010.1|EG492010
EST:     AAGTTACAGAATTCGATTTAAGGACTATTGGATTACATAGGAGAGCAAAG                         GGAACGGTTGAGCTATCATCAAGTTATGAAACTAGGACAAGTAGTATGGAA
genomic: AAGTTACAGAATTCGATTTAAGGACTATTGGATTACATAGGAGAGCAAAGgtacttgttg ... ctccttgtagGGAACGGTTGAGCTATCATCAAGTTATGAAACTAGGACAAGTAGTATGGAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AGCGTTTTCTAAGACAGATACTGCTTCCTCTGGTACTGTGTATGAGGAGAAAGTTACAGAATTCGATTTAAGGACTATTGGATTACATAGGAGAGCAAAGgtacttgttgtagttctgcaatttcaagtttttattttgtttcttactgcagagatatctagattgtatttgaatgtaggagatttcttagagattgaga

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG