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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaacatttatgaaaaaatgctaattctttcattcaattaccttatatcccatgttcactcttttatgtttagtaatcaactatggaattaaaatctgataagccatatgtaaaatctgtaacagGTCATGGCTGATAGGATCATCGGCATGAGAACTACTTTGCGAGAAAGCCTTGAGAAGTTAGGATCGCCTTTGTCATGGGAGCACGTTACCAAACAG

Basic information

species Arabidopsis thaliana
transcript AT2G30970.1
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|86044680|gb|DR340435.1|DR340435
EST:     CCATTCTTGAAGACCCAGAGTTAAAGAGTCTGTGGCTAAAAGAAGTTAAG                         GTCATGGCTGATAGGATCATCGGCATGAGAACTACTTTGCGAGAAAGCCTT
genomic: CCATTCTTGAAGACCCAGAGTTAAAGAGTCTGTGGCTAAAAGAAGTTAAGgtaacattta ... tctgtaacagGTCATGGCTGATAGGATCATCGGCATGAGAACTACTTTGCGAGAAAGCCTT
EST: gi|86079557|gb|DR375314.1|DR375314
EST:     CCATTCTTGAAGACCCAGAGTTAAAGAGTCTGTGGCTAAAAGAAGTTAAG                         GTCATGGCTGATAGGATCATCGGCATGAGAACTACTTTGCGAGAAAGCCTT
genomic: CCATTCTTGAAGACCCAGAGTTAAAGAGTCTGTGGCTAAAAGAAGTTAAGgtaacattta ... tctgtaacagGTCATGGCTGATAGGATCATCGGCATGAGAACTACTTTGCGAGAAAGCCTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tagtaatcaactatggaattaaaatctgataagccatatgtaaaatctgtaacagGTCATGGCTGATAGGATCATCGGCATGAGAACTACTTTGCGAGAAAGCCTTGAGAAGTTAGGATCGCCTTTGTCATGGGAGCACGTTACCAAACAG
                       atctgat  putative branch site (score: 4)
                aattaaaatctgataa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaacatttatgaaaaaatgctaattctttcattcaattaccttatatcccatgttcactcttttatgtttagtaatcaactatggaattaaaatctgataagccatatgtaaaatctgtaacagGTCATGGCTGATAGGATCATCGGCATGAGAACTACTTTGCGAGAAAGCCTTGAGAAGTTAGGATCGCCTTTGTCATGGGAGCACGTTACCAAACAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA