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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagcgttggcttggccatgtagggctttcgcagtcgctgcccgcggttttgtgggaacgacacttttgtaccgtaccgtatgccaaccttcctcgcggccttacccatcgctgccctgcacatgccgtcgtcacacatatgctgcgcagCGCCTGGGCGGGCGAGCGTGCGCTTGGAGGTGCAACGCTGGTTGGCGGCGAGCTGGTGGGAGTTCCAGTTGATGTGCAAGATGCCAGCAAAAAG

Basic information

species Chlamydomonas reinhardtii
transcript EDO98428
intron # 3
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|23367139|gb|BU654958.1|BU654958
EST:     GTCATGGGGCTGCCAGGCTTCCTTGCGTCGTTTATGCAAAC                         CGCCTGAGCGGGCGAGCGTGCGCTTGGAGGTGCAACGCTGGTTGGCGGCGA
genomic: GTCATGGGGCTGCCAGGCTTCCTTGCGTCGTTTATGCAAACgtaagcgttg ... tgctgcgcagCGCCTGGGCGGGCGAGCGTGCGCTTGGAGGTGCAACGCTGGTTGGCGGCGA
EST: gi|15692804|gb|BI717109.1|BI717109
EST:     GTCATGGGGCTGCCAGGCTTCCTTGCGTCGTTTATGCAAAC                         CGCCTGGGCGGGCGAGCGTGCGCTTGGAGGTGCAACGCTGGTTGGCGGCGA
genomic: GTCATGGGGCTGCCAGGCTTCCTTGCGTCGTTTATGCAAACgtaagcgttg ... tgctgcgcagCGCCTGGGCGGGCGAGCGTGCGCTTGGAGGTGCAACGCTGGTTGGCGGCGA
EST: gi|14239717|gb|BG858533.1|BG858533
EST:     GTCATGGGGCTGCCAGGCTTCCTTGCGTCGTTTATGCAAAC                         CGCCTGNGCGGGCGAGCGTGCGCTTGGAGGTGCAACGCTGTTTGGCGGCGA
genomic: GTCATGGGGCTGCCAGGCTTCCTTGCGTCGTTTATGCAAACgtaagcgttg ... tgctgcgcagCGCCTGGGCGGGCGAGCGTGCGCTTGGAGGTGCAACGCTGGTTGGCGGCGA
EST: gi|23365980|gb|BU653800.1|BU653800
EST:     GTCATGGGGCTGCCAGGCTTTCTTGCGTCGTTTATGCATAC                         CGNCTGTGCGGGCGAGCGTGCGCTTGGAGGTGCAACGCTGGTTTGGCG
genomic: GTCATGGGGCTGCCAGGCTTCCTTGCGTCGTTTATGCAAACgtaagcgttg ... tgctgcgcagCGCCTGGGCGGGCGAGCGTGCGCTTGGAGGTGCAACGCTGGTT-GGCG
EST: gi|10790071|gb|AV627437.1|AV627437
EST:     GTCATGGGGCTGCCAGGCTTCCTTGCGTCGTTTATGCAAAC                         CGCCTGNGCGGGCGAGCGTGCGCTTGGAGGTGCAACGCTGGTTGGCG
genomic: GTCATGGGGCTGCCAGGCTTCCTTGCGTCGTTTATGCAAACgtaagcgttg ... tgctgcgcagCGCCTGGGCGGGCGAGCGTGCGCTTGGAGGTGCAACGCTGGTTGGCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcggccttacccatcgctgccctgcacatgccgtcgtcacacatatgctgcgcagCGCCTGGGCGGGCGAGCGTGCGCTTGGAGGTGCAACGCTGGTTGGCGGCGAGCTGGTGGGAGTTCCAGTTGATGTGCAAGATGCCAGCAAAAAG
   gccttac  putative branch site (score: 3)
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagcgttggcttggccatgtagggctttcgcagtcgctgcccgcggttttgtgggaacgacacttttgtaccgtaccgtatgccaaccttcctcgcggccttacccatcgctgccctgcacatgccgtcgtcacacatatgctgcgcagCGCCTGGGCGGGCGAGCGTGCGCTTGGAGGTGCAACGCTGGTTGGCGGCGAGCTGGTGGGAGTTCCAGTTGATGTGCAAGATGCCAGCAAAAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG