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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtataaacaatgaagattgattctttttagtttttatcaaattaaaaatgtcaactttatagtggtttcttgtgtttgttgtagGACTTGTTTCAACTGCTGATGGGTCTGCTCTTGCTAAGATTGGTTCCACT

Basic information

species Arabidopsis thaliana
transcript AT1G60080.1
intron # 2
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|152037797|gb|BP797681.2|BP797681
EST:     TCCTGATGGAAGACAACTTGGAAAAGCTAGAGACACCATTGTTAATCTTG                         GACTTGTTT-AACTGCTGATGGGTCTGCTCTTGCTAAGATTGGTTCCACTA
genomic: TCCTGATGGAAGACAACTTGGAAAAGCTAGAGACACCATTGTTAATCTTGgtataaacaa ... tttgttgtagGACTTGTTTCAACTGCTGATGGGTCTGCTCTTGCTAAGATTGGTTCCACTA
EST: gi|19875055|gb|AU235886.1|AU235886
EST:     TCCTGATGGAAGACAACTTGGAAAAGCTAGAGACACCATTGTTAATCTTG                         GACTTGTTTCAACTGCTGATGGGTCTGCTCTTGCTAAGATTGGTTCCACT
genomic: TCCTGATGGAAGACAACTTGGAAAAGCTAGAGACACCATTGTTAATCTTGgtataaacaa ... tttgttgtagGACTTGTTTCAACTGCTGATGGGTCTGCTCTTGCTAAGATTGGTTCCACT
EST: gi|152035385|gb|BP852218.2|BP852218
EST:     TCCTGATGGAAGACAACTTGGAAAAGCTAGAGACACCATTGTTAATCTTG                         GACTTGTTTCAACTGCTGATGGGTCTGCTCTTGCTAAGATTGGTTCCACTA
genomic: TCCTGATGGAAGACAACTTGGAAAAGCTAGAGACACCATTGTTAATCTTGgtataaacaa ... tttgttgtagGACTTGTTTCAACTGCTGATGGGTCTGCTCTTGCTAAGATTGGTTCCACTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtttttatcaaattaaaaatgtcaactttatagtggtttcttgtgtttgttgtagGACTTGTTTCAACTGCTGATGGGTCTGCTCTTGCTAAGATTGGTTCCACT
     tatcaaattaaaaatg  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtataaacaatgaagattgattctttttagtttttatcaaattaaaaatgtcaactttatagtggtttcttgtgtttgttgtagGACTTGTTTCAACTGCTGATGGGTCTGCTCTTGCTAAGATTGGTTCCACT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT