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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttgattctcttcctgaaatgtgtggttctttttctgttctgttctgtttcatcttaatttgtttggggtttggtgaaaaatggatactttgttttttcagATGTGGCTTCATTGATTTGAGTGAGCTATGGAAAACAATTCTCTTCCTATGGATCCAGCTATGGATTCTTCATTCATGGACGGATTACTTCTAGAAGGTT

Basic information

species Arabidopsis thaliana
transcript AT1G76350.1
intron # 1
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|86063595|gb|DR359352.1|DR359352
EST:     CCATTTAAAACCTACTTCAAGAATCTTCCGAGAATCTGACGTC-TTTTTT                         ATGTGGCTTCATTGATTTGAGTGAGCTATGGAAAACAATTCTCTTCCTATG
genomic: CCATTTAAAACCTACTTCAAGAATCTTCCGAGAATCTGACGTCTTTTTTTgtgagttttc ... gttttttcagATGTGGCTTCATTGATTTGAGTGAGCTATGGAAAACAATTCTCTTCCTATG
EST: gi|116425143|gb|EG467735.1|EG467735
EST:     CCATTTAAAACCTACTTCAAGAATCTTCCGAGAATCTGACGTCNNNNNNN                         ATGTGGCTTCATTGATTTGAGTGAGCTATGGAAAACAATTCTCTTCCTATG
genomic: CCATTTAAAACCTACTTCAAGAATCTTCCGAGAATCTGACGTCTTTTTTTgtgagttttc ... gttttttcagATGTGGCTTCATTGATTTGAGTGAGCTATGGAAAACAATTCTCTTCCTATG
EST: gi|86063596|gb|DR359353.1|DR359353
EST:     CCATTTAAAACCTACTTCAAGAATCTTCCGAGAATCTGACGTC-TTTTTT                         ATGTGGCTTCATTGATTTGAGTGAGCTATGGAAAACAATTCTCTTCCTATG
genomic: CCATTTAAAACCTACTTCAAGAATCTTCCGAGAATCTGACGTCTTTTTTTgtgagttttc ... gttttttcagATGTGGCTTCATTGATTTGAGTGAGCTATGGAAAACAATTCTCTTCCTATG
EST: gi|86063594|gb|DR359351.1|DR359351
EST:     CCATTTAAAACCTACTTCAAGAATCTTCCGANAATCTGACGTC-TTTTTT                         ATGTGGCTTCATTGATTTGAGTGAGCTATGGAAAACAATTCTCTTCCTATG
genomic: CCATTTAAAACCTACTTCAAGAATCTTCCGAGAATCTGACGTCTTTTTTTgtgagttttc ... gttttttcagATGTGGCTTCATTGATTTGAGTGAGCTATGGAAAACAATTCTCTTCCTATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtttcatcttaatttgtttggggtttggtgaaaaatggatactttgttttttcagATGTGGCTTCATTGATTTGAGTGAGCTATGGAAAACAATTCTCTTCCTATGGATCCAGCTATGGATTCTTCATTCATGGACGGATTACTTCTAGAAGGTT
      tcttaat  putative branch site (score: 3)
                                       tactttgttttttc  putative PPT
     atcttaatttgttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttgattctcttcctgaaatgtgtggttctttttctgttctgttctgtttcatcttaatttgtttggggtttggtgaaaaatggatactttgttttttcagATGTGGCTTCATTGATTTGAGTGAGCTATGGAAAACAATTCTCTTCCTATGGATCCAGCTATGGATTCTTCATTCATGGACGGATTACTTCTAGAAGGTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - -tctcttc
- - - - - - ctgaaat
- - - - - - - - - - - - - - - - -ctgttct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgtttgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ggtttgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gaaaaat