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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTGCTGCTAGGCTTCCAGGCTTCCATGTCTGTGTAGGAAGCGGTGGAGAGAGACAGTTACCGGACTGGTATGCCGAAAAAGgtatacttttccaaccgtacactgtgattgtgaagttcatcattattgtttgccacgatgcaggaaagcttgaaccctactggtagtttttaacacgaagtaacatgcatttcgactgtcag

Basic information

species Physcomitrella patens
transcript PP1S211_74V6.2
intron # 5
splice site 5'
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|18366991|gb|BJ199071.1|BJ199071
EST:     TGTAGGAAGCGGTGGAGAGAGACAGTTACCGGACTGGTATGCCGAAAAAG                         GTATTGAACTGAAACTGGAGTCTGAGATTGTGAAGGCCGACCTAGAGAACA
genomic: TGTAGGAAGCGGTGGAGAGAGACAGTTACCGGACTGGTATGCCGAAAAAGgtatactttt ... cgactgtcagGTATTGAACTGAAACTGGAGTCTGAGATTGTGAAGGCCGACCTAGAGAACA
EST: gi|67570576|gb|BJ943400.1|BJ943400
EST:     TGTAGGAAGCGGTGGAGAGAGACAGTTACCGGACTGGTATGCCGAAAAAG                         GTATTGAACTGAAACTGGAGTCTGAGATTGTGAAGGCCGACCTAGAGAACA
genomic: TGTAGGAAGCGGTGGAGAGAGACAGTTACCGGACTGGTATGCCGAAAAAGgtatactttt ... cgactgtcagGTATTGAACTGAAACTGGAGTCTGAGATTGTGAAGGCCGACCTAGAGAACA
EST: gi|67575987|gb|BJ948811.1|BJ948811
EST:     TGTAGGAAGCGGTGGAGAGAGACAGTTACCGGACTGGTATGCCGAAAAAG                         GTATTGAACTGAAACTGGAGTCTGAGATTGTGAAGGCCGACCTAGAGAACA
genomic: TGTAGGAAGCGGTGGAGAGAGACAGTTACCGGACTGGTATGCCGAAAAAGgtatactttt ... cgactgtcagGTATTGAACTGAAACTGGAGTCTGAGATTGTGAAGGCCGACCTAGAGAACA
EST: gi|18360801|gb|BJ192864.1|BJ192864
EST:     TGTAGGAAGCGGTGGAGAGAGACAGTTACCGGACTGGTATGCCGAAAAAG                         GTATTGAACTGAAACTGGAGTCTGAGATTGTGAAGGCCGACCTAGAGAACA
genomic: TGTAGGAAGCGGTGGAGAGAGACAGTTACCGGACTGGTATGCCGAAAAAGgtatactttt ... cgactgtcagGTATTGAACTGAAACTGGAGTCTGAGATTGTGAAGGCCGACCTAGAGAACA
EST: gi|67570976|gb|BJ943800.1|BJ943800
EST:     TGTAGGAAGCGGTGGAGAGAGACAGTTACCGGACTGGTATGCCGAAAAAA                         N
genomic: TGTAGGAAGCGGTGGAGAGAGACAGTTACCGGACTGGTATGCCGAAAAAGgtatactttt ... cgactgtcag-
EST: gi|67570976|gb|BJ943800.1|BJ943800
EST:     TGTAGGAAGCGGTGGAGAGAGACAGTTACCGGACTGGTATGCCGAAAAAA                         N
genomic: TGTAGGAAGCGGTGGAGAGAGACAGTTACCGGACTGGTATGCCGAAAAAGgtatactttt ... cgactgtcag-
EST: gi|18356830|gb|BJ188889.1|BJ188889
EST:     TGTAGGAAGCGGTGGAGAGAGACAGTTACCGGACTGGTATGCCGAAAAAG                         GTATTGAACTGAAACTGGAGTCTGAGATTGTGAAGGCCGACCTAGAGAACA
genomic: TGTAGGAAGCGGTGGAGAGAGACAGTTACCGGACTGGTATGCCGAAAAAGgtatactttt ... cgactgtcagGTATTGAACTGAAACTGGAGTCTGAGATTGTGAAGGCCGACCTAGAGAACA
EST: gi|100450787|gb|CJ974439.1|CJ974439
EST:     TGTAGGAAGCGGTGGAGAGAGACAGTTACCGGACTGGTATGCCGAAAAAG                         GTATTGAACTGAAACTGGAGTCTGAGATTGTGAAGGCCGACCTAGAGAACA
genomic: TGTAGGAAGCGGTGGAGAGAGACAGTTACCGGACTGGTATGCCGAAAAAGgtatactttt ... cgactgtcagGTATTGAACTGAAACTGGAGTCTGAGATTGTGAAGGCCGACCTAGAGAACA
EST: gi|18332007|gb|BJ164019.1|BJ164019
EST:     TGTAGGAAGCGGTGGANAGAGACAGTTACCGGACTGGTATGCCGAAAAAG                         GTATTGAACTGAAACTGGAGTCTGAGATTGTGAAGGCCGACCTA
genomic: TGTAGGAAGCGGTGGAGAGAGACAGTTACCGGACTGGTATGCCGAAAAAGgtatactttt ... cgactgtcagGTATTGAACTGAAACTGGAGTCTGAGATTGTGAAGGCCGACCTA
EST: gi|18332207|gb|BJ164220.1|BJ164220
EST:     TGTAGGAAGCGGTGGAGAGAGACAGTTACCGGACTGGTATGCCGAAAAAG                         GTATTGAACTGAAACTGGAGTCTGAGATTGTGAAGGCCGACCTAGAGAACA
genomic: TGTAGGAAGCGGTGGAGAGAGACAGTTACCGGACTGGTATGCCGAAAAAGgtatactttt ... cgactgtcagGTATTGAACTGAAACTGGAGTCTGAGATTGTGAAGGCCGACCTAGAGAACA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CTGCTGCTAGGCTTCCAGGCTTCCATGTCTGTGTAGGAAGCGGTGGAGAGAGACAGTTACCGGACTGGTATGCCGAAAAAGgtatacttttccaaccgtacactgtgattgtgaagttcatcattattgtttgccacgatgcaggaaagcttgaaccctactggtagtttttaacacgaagtaacatgcatttcgactgtcag

- - - - - - - - - - - - - - - - - - - -  GGTGGA
- - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - -  TGGAGA