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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttagataatcaattcacaaagaggtttttagattctttattaattactcattctgaattaaatgattatcttttggcagAGTCTCCGATTCCCATCAATGTTGTTCTGTCGATAAACCACGCGGTGTTTGTGAATGGAGATACCAATATCAGTATAGAGCCTTCCTTTGGTGTGGAAGC

Basic information

species Arabidopsis thaliana
transcript AT1G75280.1
intron # 4
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|124972770|gb|EL046444.1|EL046444
EST:     CTTGAGAAGACTCACCTCCCTAGAGGAACAACTACTTAAAAGCATCCAAG                         AGTCTCCGA-TCCCATCAATGTTGTTCTGTCGATAAACCACGCGGTGTTTG
genomic: CTTGAGAAGACTCACCTCCC-AGAGGAACAACTACTTAAAAGCATCCAAGgtttagataa ... cttttggcagAGTCTCCGATTCCCATCAATGTTGTTCTGTCGATAAACCACGCGGTGTTTG
EST: gi|125118479|gb|EL167187.1|EL167187
EST:     TCTTGAGAAGACTCACCTCCCAGAGGAACAACTACTTAAAAGCATCCAAG                         AGTCTCCGATTCCCATCAA
genomic: TCTTGAGAAGACTCACCTCCCAGAGGAACAACTACTTAAAAGCATCCAAGgtttagataa ... cttttggcagAGTCTCCGATTCCCATCAA
EST: gi|125114869|gb|EL165103.1|EL165103
EST:     TCTTGAGAAGACTCACCTCCCAGAGGAACAACTACTTAAAAGCATCCAAG                         AGTCTCCGATTCCCATCAATGTTGTT
genomic: TCTTGAGAAGACTCACCTCCCAGAGGAACAACTACTTAAAAGCATCCAAGgtttagataa ... cttttggcagAGTCTCCGATTCCCATCAATGTTGTT
EST: gi|116406066|gb|EG448658.1|EG448658
EST:     TCTTGAGAAGACTCACCTCCCAGAGGAACAACTACTTAAAAGCATCCAAG                         AGTCTCCGATTCCCATCAATGTTGTTCTGTCGATAAACCACGCGGTGTTTG
genomic: TCTTGAGAAGACTCACCTCCCAGAGGAACAACTACTTAAAAGCATCCAAGgtttagataa ... cttttggcagAGTCTCCGATTCCCATCAATGTTGTTCTGTCGATAAACCACGCGGTGTTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttttagattctttattaattactcattctgaattaaatgattatcttttggcagAGTCTCCGATTCCCATCAATGTTGTTCTGTCGATAAACCACGCGGTGTTTGTGAATGGAGATACCAATATCAGTATAGAGCCTTCCTTTGGTGTGGAAGC
             tattaat  putative branch site (score: 2)
                                         ttatctttt  putative PPT
           tttattaattactcat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtttagataatcaattcacaaagaggtttttagattctttattaattactcattctgaattaaatgattatcttttggcagAGTCTCCGATTCCCATCAATGTTGTTCTGTCGATAAACCACGCGGTGTTTGTGAATGGAGATACCAATATCAGTATAGAGCCTTCCTTTGGTGTGGAAGC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG