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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgcgtgcgcaattggcaatttcttccagttgtttctatgcctgggggcgcagcttcttcgcccgcaggcctgtcgcactaacaccccgaccattgaattcacattgtgcctcacagAGTGCAGCAGCCTGTTTACTTCGCGGACTCCGTGGCGAGTGTGAGCATGGATGAAG

Basic information

species Chlamydomonas reinhardtii
transcript EDP04078
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|22073224|gb|BQ822562.1|BQ822562
EST:     CCACCAAAGATGGACACGGAAGCAGCAGCTTTAAAGGCAAAAGCCAGCGG                         AGTGCAGCAGCCTGTTTACTTCGCGGACTCCGTGGCGAGTGTGAGCATGGA
genomic: CCACCAAAGATGGACACGGAAGCAGCAGCTTTAAAGGCAAAAGCCAGCGGgtgcgtgcgc ... tgcctcacagAGTGCAGCAGCCTGTTTACTTCGCGGACTCCGTGGCGAGTGTGAGCATGGA
EST: gi|49467835|gb|BP095696.1|BP095696
EST:     CCACCAAAGATGGACACGGAAGCAGCAGCTTTAAAGGCAAAAGCCAGCGG                         AGTGCAGCAGCCTGTTTACTTCGCGGACTCCGTGGCGAGTGTGAGCATGGA
genomic: CCACCAAAGATGGACACGGAAGCAGCAGCTTTAAAGGCAAAAGCCAGCGGgtgcgtgcgc ... tgcctcacagAGTGCAGCAGCCTGTTTACTTCGCGGACTCCGTGGCGAGTGTGAGCATGGA
EST: gi|22069210|gb|BQ818869.1|BQ818869
EST:     CCACCAAAGATGGACACGGAAGCAGCAGCTTTAAAGGCAAAAGCCAGCGG                         AGTGCAGCAGCCTGTTTACTTCGCGGACTCCGTGGCGAGTGTGAGCATGGA
genomic: CCACCAAAGATGGACACGGAAGCAGCAGCTTTAAAGGCAAAAGCCAGCGGgtgcgtgcgc ... tgcctcacagAGTGCAGCAGCCTGTTTACTTCGCGGACTCCGTGGCGAGTGTGAGCATGGA
EST: gi|22070606|gb|BQ819944.1|BQ819944
EST:     CCACCAAAGATGGACACGGAAGCAGCAGCTTTAAAGGCAAAAGCCAGCGG                         AGTGCAGCAGCCTGTTTACTTCGCGGACTCCGTGGCGAGTGTGAGCATGGA
genomic: CCACCAAAGATGGACACGGAAGCAGCAGCTTTAAAGGCAAAAGCCAGCGGgtgcgtgcgc ... tgcctcacagAGTGCAGCAGCCTGTTTACTTCGCGGACTCCGTGGCGAGTGTGAGCATGGA
EST: gi|22064314|gb|BQ815735.1|BQ815735
EST:     CCACCAAAGATGGACACGGAAGCAGCAGCTTTAAAGGCAAAAGCCAGCGG                         AGTGCAGCAGCCTGTTTACTTCGCGGACTCCGTGGCGAGTGTGAGCATGGA
genomic: CCACCAAAGATGGACACGGAAGCAGCAGCTTTAAAGGCAAAAGCCAGCGGgtgcgtgcgc ... tgcctcacagAGTGCAGCAGCCTGTTTACTTCGCGGACTCCGTGGCGAGTGTGAGCATGGA
EST: gi|10787327|gb|AV643999.1|AV643999
EST:     CCACCAAAGATGGACACGGAAGCAGCAGCTTTAAAGGCAACAGCCAGCGG                         AGTGCAGCAGCCTGTTTACTTCGCGGACTCCGTGGCGAGTGTGAGCATGGA
genomic: CCACCAAAGATGGACACGGAAGCAGCAGCTTTAAAGGCAAAAGCCAGCGGgtgcgtgcgc ... tgcctcacagAGTGCAGCAGCCTGTTTACTTCGCGGACTCCGTGGCGAGTGTGAGCATGGA
EST: gi|15700901|gb|BI725206.1|BI725206
EST:     CCACCAAAGATGGACACGGAAGCAGCAGCTTTAAAGGCAAAAGCCAGCGG                         AGTGCAGCAGCCTGTTTACTTCGCGGACTCCGTGGCGAGTGTGAGCATGGA
genomic: CCACCAAAGATGGACACGGAAGCAGCAGCTTTAAAGGCAAAAGCCAGCGGgtgcgtgcgc ... tgcctcacagAGTGCAGCAGCCTGTTTACTTCGCGGACTCCGTGGCGAGTGTGAGCATGGA
EST: gi|15700902|gb|BI725207.1|BI725207
EST:     CCACCAAAGATGGACACGGAAGCAGCAGCTTTAAAGGCAAAAGCCAGCGG                         AGTGCAGCAGCCTGTTTACTTCGCGGACTCCGTGGCGAGTGTGAGCATGGA
genomic: CCACCAAAGATGGACACGGAAGCAGCAGCTTTAAAGGCAAAAGCCAGCGGgtgcgtgcgc ... tgcctcacagAGTGCAGCAGCCTGTTTACTTCGCGGACTCCGTGGCGAGTGTGAGCATGGA
EST: gi|15700900|gb|BI725205.1|BI725205
EST:     CCACCAAAGATGGACACGGAAGCAGCAGCTTTAAAGGCAAAAGCCAGCGG                         AGTGCAGCAGCCTGTTTACTTCGCGGACTCCGTGGCGAGTGTGAGCATGGA
genomic: CCACCAAAGATGGACACGGAAGCAGCAGCTTTAAAGGCAAAAGCCAGCGGgtgcgtgcgc ... tgcctcacagAGTGCAGCAGCCTGTTTACTTCGCGGACTCCGTGGCGAGTGTGAGCATGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccgcaggcctgtcgcactaacaccccgaccattgaattcacattgtgcctcacagAGTGCAGCAGCCTGTTTACTTCGCGGACTCCGTGGCGAGTGTGAGCATGGATGAAG
              cactaac  putative branch site (score: 1)
                              attgaatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgcgtgcgcaattggcaatttcttccagttgtttctatgcctgggggcgcagcttcttcgcccgcaggcctgtcgcactaacaccccgaccattgaattcacattgtgcctcacagAGTGCAGCAGCCTGTTTACTTCGCGGACTCCGTGGCGAGTGTGAGCATGGATGAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA