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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtaaaagcttttgagatattagtagactagagacacagccaaaagtttatgtcattacattcgactgatgtttgttctgttaatgacagCAGGATGGGGGTCGATTGGTGGAGACTGGAGAGCAAAATGGGATGATGGGTTTAAGATAAGATATTAAAAATGCAATTTTTGAAGTATTTTGTTGGCCAC

Basic information

species Arabidopsis thaliana
transcript AT5G62000.3
intron # 15
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|164100186|gb|ES186795.1|ES186795
EST:     GAACTCTTAAACAAACAAAATAACCAACAACCCTTTTGCTGCAAGCCGAG                         CAGGATGGGGGGTCGATTGGTGGAGAC
genomic: GAACTCTTAAACAAACAAAATAACCAACAACCCTTTTGCTGCAAGCCGAGgtatgtaaaa ... ttaatgacagCAGGATGGGGG-TCGATTGGTGGAGAC
EST: gi|124723621|gb|EH815023.1|EH815023
EST:     AACAAAATAACCAACAACCCTTTTGCTGCAAGCCGAG                         CAGGATGGGGGTCGATTGGTGGAGACTGGAGAGCAAAGTGGGATGATGGGT
genomic: AACAAAATAACCAACAACCCTTTTGCTGCAAGCCGAGgtatgtaaaa ... ttaatgacagCAGGATGGGGGTCGATTGGTGGAGACTGGAGAGCAAAATGGGATGATGGGT
EST: gi|116443256|gb|EG485848.1|EG485848
EST:     GAACTCTTAAACAAACAAAATAACCAACAACCCTTTTGCTGCAAGCCGAG                         CAGGATGGGGGTCGATTGGTGGAGACTGGAGAGCAAAATGGGATGATGGGT
genomic: GAACTCTTAAACAAACAAAATAACCAACAACCCTTTTGCTGCAAGCCGAGgtatgtaaaa ... ttaatgacagCAGGATGGGGGTCGATTGGTGGAGACTGGAGAGCAAAATGGGATGATGGGT
EST: gi|116434200|gb|EG476792.1|EG476792
EST:     GAACTTTTAAACAAACAAAATAACCAACAACCCTTTTGCTGCAAGCCGAG                         --G-ATGGGGGTCGATTGGTGGAGACTGGAGAGCAAAATGGGATGATGGGT
genomic: GAACTCTTAAACAAACAAAATAACCAACAACCCTTTTGCTGCAAGCCGAGgtatgtaaaa ... ttaatgacagCAGGATGGGGGTCGATTGGTGGAGACTGGAGAGCAAAATGGGATGATGGGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acagccaaaagtttatgtcattacattcgactgatgtttgttctgttaatgacagCAGGATGGGGGTCGATTGGTGGAGACTGGAGAGCAAAATGGGATGATGGGTTTAAGATAAGATATTAAAAATGCAATTTTTGAAGTATTTTGTTGGCCAC
                                           tgttaat  putative branch site (score: 3)
                                        ttctgtt  CT-rich tract
      aaaagtttat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatgtaaaagcttttgagatattagtagactagagacacagccaaaagtttatgtcattacattcgactgatgtttgttctgttaatgacagCAGGATGGGGGTCGATTGGTGGAGACTGGAGAGCAAAATGGGATGATGGGTTTAAGATAAGATATTAAAAATGCAATTTTTGAAGTATTTTGTTGGCCAC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG