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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ggacggcgccagctccacttcaaaaggggttgccagctgtcgccatcgtatgatctgcgactgactctgcccctgttctgccctgtccatgccgctacagTTGGTGGACGAGGCCTACCAGCGATGGCTGACGGAGGAGGAGGGCGTAGTGGACGACATCACCGCCGTCGTGGTGCGCTTCGTCCACCCATAGTCAGGCC

Basic information

species Chlamydomonas reinhardtii
transcript EDP09786
intron # 9
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|161795286|gb|FC081407.1|FC081407
EST:     CGGTCGACATCGTGGCGCAGTACGAGAGCGCAGAGGAGGCGTGCCGCCAG                         TTGGTGGACGAGGCCTACCAGCGATGGCTGACGGAGGAGGAGGGCGTAGT
genomic: CGGTCGACATCGTGGCGCAGTACGAGAGCGCAGAGGAGGCGTGCCGCCAGgtgcgcaagc ... gccgctacagTTGGTGGACGAGGCCTACCAGCGATGGCTGACGGAGGAGGAGGGCGTAGT
EST: gi|14234787|gb|BG853603.1|BG853603
EST:     CGGTCGACATCGTGGCGCAGTACGAGAGCGCAGAGGAGGCGTGCCGCCAG                         TTGGTGGACGAGGCCTACCAGCGATGGCTGACGGAGGAGGAGGGCGTAGTG
genomic: CGGTCGACATCGTGGCGCAGTACGAGAGCGCAGAGGAGGCGTGCCGCCAGgtgcgcaagc ... gccgctacagTTGGTGGACGAGGCCTACCAGCGATGGCTGACGGAGGAGGAGGGCGTAGTG
EST: gi|14234788|gb|BG853604.1|BG853604
EST:     CGGTCGACATCGTGGCGCAGTACGAGAGCGCAGAGGAGGCGTGCCGCCAG                         TTGGTGGACGAGGCCTACCAGCGATGGCTGACGGAGGAGGAGGGCGTAGTG
genomic: CGGTCGACATCGTGGCGCAGTACGAGAGCGCAGAGGAGGCGTGCCGCCAGgtgcgcaagc ... gccgctacagTTGGTGGACGAGGCCTACCAGCGATGGCTGACGGAGGAGGAGGGCGTAGTG
EST: gi|16072868|gb|BI874864.1|BI874864
EST:     CGGTCGACATCGTGGCGCAGTACGAGAGCGCAGAGGAGGCGTGCCGCCAG                         TTGGTGGACGAGGCCTACCAGCGATGGCTGA
genomic: CGGTCGACATCGTGGCGCAGTACGAGAGCGCAGAGGAGGCGTGCCGCCAGgtgcgcaagc ... gccgctacagTTGGTGGACGAGGCCTACCAGCGATGGCTGA
EST: gi|161800089|gb|FC082724.1|FC082724
EST:     CGGTCGACATCGTGGCGCAGTACGAGAGCGCAGAGGAGGCGTGCCGCCAG                         TTGGTGGACGAGGCCTACCAGCGATGGCTGACGGAGGAGGAGGGCGTAGTG
genomic: CGGTCGACATCGTGGCGCAGTACGAGAGCGCAGAGGAGGCGTGCCGCCAGgtgcgcaagc ... gccgctacagTTGGTGGACGAGGCCTACCAGCGATGGCTGACGGAGGAGGAGGGCGTAGTG
EST: gi|161795083|gb|FC078227.1|FC078227
EST:     CGGTCGACATCGTGGCGCAGTACGAGAGCGCAGAGGAGGCGTGCCGCCAG                         TTGGTGGACGAGGCCTACCAGCGATGGCTGACGGAGGAGGAGGGCGTAGTG
genomic: CGGTCGACATCGTGGCGCAGTACGAGAGCGCAGAGGAGGCGTGCCGCCAGgtgcgcaagc ... gccgctacagTTGGTGGACGAGGCCTACCAGCGATGGCTGACGGAGGAGGAGGGCGTAGTG
EST: gi|16431002|gb|BI996228.1|BI996228
EST:     CGGTCGACATCGTGGCGCAGTACGAGAGCGCAGAGGAGGCGTGCCGCCAG                         TTGGTGGACGAGGCCTACCAGCGATGGCTGACGGAGGAGGAGGGCGTAGTG
genomic: CGGTCGACATCGTGGCGCAGTACGAGAGCGCAGAGGAGGCGTGCCGCCAGgtgcgcaagc ... gccgctacagTTGGTGGACGAGGCCTACCAGCGATGGCTGACGGAGGAGGAGGGCGTAGTG
EST: gi|15371592|gb|BI531018.1|BI531018
EST:     GCGCAGAGGAGGCGTGCCGCCAG                         TTGGTGGACGAGGCCTACCAGCGATGGCTGACGGAGGAGGAGGGCGTAGTG
genomic: GCGCAGAGGAGGCGTGCCGCCAGgtgcgcaagc ... gccgctacagTTGGTGGACGAGGCCTACCAGCGATGGCTGACGGAGGAGGAGGGCGTAGTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcgtatgatctgcgactgactctgcccctgttctgccctgtccatgccgctacagTTGGTGGACGAGGCCTACCAGCGATGGCTGACGGAGGAGGAGGGCGTAGTGGACGACATCACCGCCGTCGTGGTGCGCTTCGTCCACCCATAGTCAGGCC
             gactgac  putative branch site (score: 2)
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ggacggcgccagctccacttcaaaaggggttgccagctgtcgccatcgtatgatctgcgactgactctgcccctgttctgccctgtccatgccgctacagTTGGTGGACGAGGCCTACCAGCGATGGCTGACGGAGGAGGAGGGCGTAGTGGACGACATCACCGCCGTCGTGGTGCGCTTCGTCCACCCATAGTCAGGCC

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