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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaggccgccttgccgagctatacttcagtaaactgccatacgctctacaggttgcatgcgtcgcacgcataagggttgttgcacggccctctgcagagcaccctgacagccttgtggcaaccccgaaaaccatgcacgctctgtcccgcatgcatctcagGCCCGCTGTGCTACGACATGAGCGCCGCTGACGACTTCCTCAACCGGCCCGAGGTCCGCAAGCAGCTGGGTGTGGGCAACCGCGAGTGGTCCGAGTGCGA

Basic information

species Chlamydomonas reinhardtii
transcript EDP01561
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|8514445|gb|BE122340.1|BE122340
EST:     GNGCGCCAATCCCGACATCAATGTGTACGATATCACCAAGAAGTGCGACG                         GCCCGCTGTGCTACGACATGAGCGCCGCTGACGACTTCCTCAACCGGCCCG
genomic: GGGCGCCAATCCCGACATCAATGTGTACGATATCACCAAGAAGTGCGACGgtgaggccgc ... tgcatctcagGCCCGCTGTGCTACGACATGAGCGCCGCTGACGACTTCCTCAACCGGCCCG
EST: gi|10768962|gb|AV619787.1|AV619787
EST:     GGGCGCCAATCCCGACATCAATGTGTACGATATCACCAAGAAGTGCGACG                         GCCCGCTGTGCTACGACATGAGCGCCGCTGACGACTTCCTCAACCGGCCCG
genomic: GGGCGCCAATCCCGACATCAATGTGTACGATATCACCAAGAAGTGCGACGgtgaggccgc ... tgcatctcagGCCCGCTGTGCTACGACATGAGCGCCGCTGACGACTTCCTCAACCGGCCCG
EST: gi|161818078|gb|FC100302.1|FC100302
EST:     GGGCGCCAATCCCGACATCAATGTGTACGATATCACCAAGAAGTGCGACG                         GCCCGCTGTGCTACGACATGAGCGCCGCTGACGACTTCCTCAACCGGCCCG
genomic: GGGCGCCAATCCCGACATCAATGTGTACGATATCACCAAGAAGTGCGACGgtgaggccgc ... tgcatctcagGCCCGCTGTGCTACGACATGAGCGCCGCTGACGACTTCCTCAACCGGCCCG
EST: gi|8576864|gb|BE129501.1|BE129501
EST:     GGGCGCCAATCCCGACATCAATGTGTACGATATCACCAAGAAGTGCGACG                         GCCCGCTGTGCTACGACATGAGCGCCGCTGACGACTTCCTCAACCGGCCCG
genomic: GGGCGCCAATCCCGACATCAATGTGTACGATATCACCAAGAAGTGCGACGgtgaggccgc ... tgcatctcagGCCCGCTGTGCTACGACATGAGCGCCGCTGACGACTTCCTCAACCGGCCCG
EST: gi|161822319|gb|FC111095.1|FC111095
EST:     GGGCGCCAATCCCGACATCAATGTGTACGATATCACCAAGAAGTGCGACG                         GCCCGCTGTGCTACGACATGAGCGCCGCTGACGACTTCCTCAACCGGCCCG
genomic: GGGCGCCAATCCCGACATCAATGTGTACGATATCACCAAGAAGTGCGACGgtgaggccgc ... tgcatctcagGCCCGCTGTGCTACGACATGAGCGCCGCTGACGACTTCCTCAACCGGCCCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acagccttgtggcaaccccgaaaaccatgcacgctctgtcccgcatgcatctcagGCCCGCTGTGCTACGACATGAGCGCCGCTGACGACTTCCTCAACCGGCCCGAGGTCCGCAAGCAGCTGGGTGTGGGCAACCGCGAGTGGTCCGAGTGCGA
 ccctgac  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgaggccgccttgccgagctatacttcagtaaactgccatacgctctacaggttgcatgcgtcgcacgcataagggttgttgcacggccctctgcagagcaccctgacagccttgtggcaaccccgaaaaccatgcacgctctgtcccgcatgcatctcagGCCCGCTGTGCTACGACATGAGCGCCGCTGACGACTTCCTCAACCGGCCCGAGGTCCGCAAGCAGCTGGGTGTGGGCAACCGCGAGTGGTCCGAGTGCGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG