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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cgtccgccctccccccccaagattgccagccgtctaccgcgtgcgtctaccgttttctcagctaatcgtgaatgtaacccgccctccaccgcgcctgcagTCTCTGGGCCTGCCGTACCGCGTGGTGAACATCGTGTCTGGCGAGCTGAACAACGCCGCCTCCAAGAAGTACGACCTGGAGGCCTGGTTCCCCGCCTCCG

Basic information

species Chlamydomonas reinhardtii
transcript EDP04520
intron # 8
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|22071036|gb|BQ820374.1|BQ820374
EST:     CGTGGGAGGCCATGGAGGAGATGCTGGCAAACGCCGAGGACTTCTACCAG                         TCTCTGGGCCTGCCGTACCGCGTGGTGAACATCGTGTCTGGCGAGCTGAAC
genomic: CGTGGGAGGCCATGGAGGAGATGCTGGCAAACGCCGAGGACTTCTACCAGgtgggggcag ... gcgcctgcagTCTCTGGGCCTGCCGTACCGCGTGGTGAACATCGTGTCTGGCGAGCTGAAC
EST: gi|22068503|gb|BQ818421.1|BQ818421
EST:     CGTGGGAGGCCATGGAGGAGATGCTGGCAAACGCCGAGGACTTCTACCAG                         TCTCTGGGCCTGCCGTACCGCGTGGTGAACATCGTGTCTGGCGAGCTGAAC
genomic: CGTGGGAGGCCATGGAGGAGATGCTGGCAAACGCCGAGGACTTCTACCAGgtgggggcag ... gcgcctgcagTCTCTGGGCCTGCCGTACCGCGTGGTGAACATCGTGTCTGGCGAGCTGAAC
EST: gi|8400812|gb|BE056446.1|BE056446
EST:     CGTGGGAGGCCATGGAGGAGATGCTGGCAAACGCCGAGGACTTCTACCAG                         TCTCTGGGCCTGCCGTACCGCGTGGTGAACATCGTGTCTGGCGAGCTGAAC
genomic: CGTGGGAGGCCATGGAGGAGATGCTGGCAAACGCCGAGGACTTCTACCAGgtgggggcag ... gcgcctgcagTCTCTGGGCCTGCCGTACCGCGTGGTGAACATCGTGTCTGGCGAGCTGAAC
EST: gi|10773615|gb|AV624438.1|AV624438
EST:     CGTGGGAGGCCATGGAGGAGATGCTGGCAAACGCCGAGGACTTCTACCAG                         TCTCTGGGCCTGCCGTACCGCGTGGTGAACATCGTGTCTGGCGAGCTGAAC
genomic: CGTGGGAGGCCATGGAGGAGATGCTGGCAAACGCCGAGGACTTCTACCAGgtgggggcag ... gcgcctgcagTCTCTGGGCCTGCCGTACCGCGTGGTGAACATCGTGTCTGGCGAGCTGAAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctaccgttttctcagctaatcgtgaatgtaacccgccctccaccgcgcctgcagTCTCTGGGCCTGCCGTACCGCGTGGTGAACATCGTGTCTGGCGAGCTGAACAACGCCGCCTCCAAGAAGTACGACCTGGAGGCCTGGTTCCCCGCCTCCG
                          atgtaac  putative branch site (score: 3)
                         aatgtaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
cgtccgccctccccccccaagattgccagccgtctaccgcgtgcgtctaccgttttctcagctaatcgtgaatgtaacccgccctccaccgcgcctgcagTCTCTGGGCCTGCCGTACCGCGTGGTGAACATCGTGTCTGGCGAGCTGAACAACGCCGCCTCCAAGAAGTACGACCTGGAGGCCTGGTTCCCCGCCTCCG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgaatgt