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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...catcctttcacccgtccccaccgcacctctggtgccgctcgtcctctcctgacccctccgtcttccttggccccgcccccctcccacacacaccacacagTTCATGTACGACCAGGTGTTTGAGAAGGAGGACCCCGGCTTTGACGGCGCCAGCCGCACACACCGGGACACCAAGAACAAAACCATGCTGTCGCGTGATC

Basic information

species Chlamydomonas reinhardtii
transcript EDP06355
intron # 4
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|161794267|gb|FC081649.1|FC081649
EST:     GGCTAGAAGCGTCGCAATTGCGGACGTCACGCAAGGTGGACCCCGAGGTG                         TTCATGTACGACCAGGTGTTTGAGAAGGAGGACCCCGGCTTTGACGGCGCC
genomic: GGCTAGAAGCGTCGCAATTGCGGACGTCACGCAAGATGGAGCCCGAGGTGgtgagtccag ... caccacacagTTCATGTACGACCAGGTGTTTGAGAAGGAGGACCCCGGCTTTGACGGCGCC
EST: gi|9028321|gb|BE238361.1|BE238361
EST:     GGCTAGAAGCGTCGCAATTGCGGACGTCACGCAAGATGGAGCCCGAGGTG                         TTCATGTACGACCAGGTGTTTGAGAAGGAGGACCCCGGCTTTGACGGCGCC
genomic: GGCTAGAAGCGTCGCAATTGCGGACGTCACGCAAGATGGAGCCCGAGGTGgtgagtccag ... caccacacagTTCATGTACGACCAGGTGTTTGAGAAGGAGGACCCCGGCTTTGACGGCGCC
EST: gi|14240466|gb|BG859282.1|BG859282
EST:     GGCTAGAAGCGTCGCAATTGCGGACGTCACGCAAGATGGAGCCCGAGGTG                         TTCATGTACGACCAGGTGTTTGAGAAGGAGGACCCCGG
genomic: GGCTAGAAGCGTCGCAATTGCGGACGTCACGCAAGATGGAGCCCGAGGTGgtgagtccag ... caccacacagTTCATGTACGACCAGGTGTTTGAGAAGGAGGACCCCGG
EST: gi|14242094|gb|BG860910.1|BG860910
EST:     GGCTAGAAGCGTCGCAATTGCGGACGTCACGCAAGATGGAGCCCGAGGTG                         TTCATGTACGACCAGGTGTTTGAGAAGGAGGAC
genomic: GGCTAGAAGCGTCGCAATTGCGGACGTCACGCAAGATGGAGCCCGAGGTGgtgagtccag ... caccacacagTTCATGTACGACCAGGTGTTTGAGAAGGAGGAC
EST: gi|14242021|gb|BG860837.1|BG860837
EST:     GGCTAGAAGCGTCGCAATTGCGGACGTCACGCAAGATGGAGCCCGAGGTG                         TTCATGTACGACCAGGTGTTTGAGAAGGAGGACCCCGGCT
genomic: GGCTAGAAGCGTCGCAATTGCGGACGTCACGCAAGATGGAGCCCGAGGTGgtgagtccag ... caccacacagTTCATGTACGACCAGGTGTTTGAGAAGGAGGACCCCGGCT
EST: gi|161807964|gb|FC097569.1|FC097569
EST:     GGCTAGAAGCGTCGCAATTGCGGACGTCACGCAAGGTGGACCCCGAGGTG                         TTCATGTACGACCAGGTGTTTGAGAAGGAGGACCCCGGCTTTGACGGCGCC
genomic: GGCTAGAAGCGTCGCAATTGCGGACGTCACGCAAGATGGAGCCCGAGGTGgtgagtccag ... caccacacagTTCATGTACGACCAGGTGTTTGAGAAGGAGGACCCCGGCTTTGACGGCGCC
EST: gi|161818114|gb|FC102275.1|FC102275
EST:     GGCTAGAAGCGTCGCAATTGCGGACGTCACGCAAGGTGGACCCCGAGGTG                         TTCATGTACGACCAGGTGTTTGAGAAGGAGGACCCCGGCTTTGACGGCGCC
genomic: GGCTAGAAGCGTCGCAATTGCGGACGTCACGCAAGATGGAGCCCGAGGTGgtgagtccag ... caccacacagTTCATGTACGACCAGGTGTTTGAGAAGGAGGACCCCGGCTTTGACGGCGCC
EST: gi|23366593|gb|BU654412.1|BU654412
EST:     GGCTAGAAGCGTCGCAATTGCGGACGTCACGCAAGATGGAGCCCGAGGTG                         TTCATGTACGACCAGGTGTTTGAGAAGGAGGACCCCGGCTTTGACGGCGCC
genomic: GGCTAGAAGCGTCGCAATTGCGGACGTCACGCAAGATGGAGCCCGAGGTGgtgagtccag ... caccacacagTTCATGTACGACCAGGTGTTTGAGAAGGAGGACCCCGGCTTTGACGGCGCC
EST: gi|15372828|gb|BI532254.1|BI532254
EST:     GGCTAGAAGCGTCGCAATTGCGGACGTCACGCAAGATGGAGCCCGAGGTG                         TTCATGTACGACCAGGTGTTTGAGAAGGAGGACCCCGGCTTTGACGGCGCC
genomic: GGCTAGAAGCGTCGCAATTGCGGACGTCACGCAAGATGGAGCCCGAGGTGgtgagtccag ... caccacacagTTCATGTACGACCAGGTGTTTGAGAAGGAGGACCCCGGCTTTGACGGCGCC
EST: gi|161802719|gb|FC089137.1|FC089137
EST:     GGCTAGAAGCGTCGCAATTGCGGACGTCACGCAAGGTGGACCCCGAGGTG                         TTCATGTACGACCAGGTGTTTGAGAAGGAGGACCCCGGCTTTGACGGCGCC
genomic: GGCTAGAAGCGTCGCAATTGCGGACGTCACGCAAGATGGAGCCCGAGGTGgtgagtccag ... caccacacagTTCATGTACGACCAGGTGTTTGAGAAGGAGGACCCCGGCTTTGACGGCGCC
EST: gi|22070741|gb|BQ820079.1|BQ820079
EST:     GGCTAGAAGCGTCGCAATTGCGGACGTCACGCAAGATGGAGCCCGAGGTG                         TTCATGTACGACCAGGTGTTT
genomic: GGCTAGAAGCGTCGCAATTGCGGACGTCACGCAAGATGGAGCCCGAGGTGgtgagtccag ... caccacacagTTCATGTACGACCAGGTGTTT
EST: gi|161811408|gb|FC097990.1|FC097990
EST:     GGCTAGAAGCGTCGCAATTGCGGACGTCACGCAAGGTGGACCCCGAGGTG                         TTCATGTACGACCAGGTGTTTGAGAAGGAGGACCCCGGCTTTGACGGCGCC
genomic: GGCTAGAAGCGTCGCAATTGCGGACGTCACGCAAGATGGAGCCCGAGGTGgtgagtccag ... caccacacagTTCATGTACGACCAGGTGTTTGAGAAGGAGGACCCCGGCTTTGACGGCGCC
EST: gi|23366648|gb|BU654467.1|BU654467
EST:     GGCTAGAAGCGTCGCAATTGCGGACGTCACGCAAGATGGAGCCCGAGGTG                         TTCATGTACGACCAGGTGTTTGAGAAGGAGGANCCCNGCTTTGACGGCGCC
genomic: GGCTAGAAGCGTCGCAATTGCGGACGTCACGCAAGATGGAGCCCGAGGTGgtgagtccag ... caccacacagTTCATGTACGACCAGGTGTTTGAGAAGGAGGACCCCGGCTTTGACGGCGCC
EST: gi|161803940|gb|FC093855.1|FC093855
EST:     GGCTAGAAGCGTCGCAATTGCGGACGTCACGCAAGGTGGACCCCGAGGTG                         TTCATGTACGACCAGGTGTTTGAGAAGGAGGACCCCGGCTTTGACGGCGCC
genomic: GGCTAGAAGCGTCGCAATTGCGGACGTCACGCAAGATGGAGCCCGAGGTGgtgagtccag ... caccacacagTTCATGTACGACCAGGTGTTTGAGAAGGAGGACCCCGGCTTTGACGGCGCC
EST: gi|161810920|gb|FC099673.1|FC099673
EST:     GGCTAGAAGCGTCGCAATTGCGGACGTCACGCAAGGTGGACCCCGAGGTG                         TTCATGTACGACCAGGTGTTTGAGAAGGAGGACCCCGGCTTTGACGGCGCC
genomic: GGCTAGAAGCGTCGCAATTGCGGACGTCACGCAAGATGGAGCCCGAGGTGgtgagtccag ... caccacacagTTCATGTACGACCAGGTGTTTGAGAAGGAGGACCCCGGCTTTGACGGCGCC
EST: gi|161817918|gb|FC103613.1|FC103613
EST:     GGCTAGAAGCGTCGCAATTGCGGACGTCACGCAAGGTGGACCCCGAGGTG                         TTCATGTACGACCAGGTGTTTGAGAAGGAGGACCCCGGCTTTGACGGCGCC
genomic: GGCTAGAAGCGTCGCAATTGCGGACGTCACGCAAGATGGAGCCCGAGGTGgtgagtccag ... caccacacagTTCATGTACGACCAGGTGTTTGAGAAGGAGGACCCCGGCTTTGACGGCGCC
EST: gi|161796564|gb|FC082894.1|FC082894
EST:     GGCTAGAAGCGTCGCAATTGCGGACGTCACGCAAGGTGGACCCCGAGGTG                         TTCATGTACGACCAGGTGTTTGAGAAGGAGGACCCCGGCTTTGACGGCGCC
genomic: GGCTAGAAGCGTCGCAATTGCGGACGTCACGCAAGATGGAGCCCGAGGTGgtgagtccag ... caccacacagTTCATGTACGACCAGGTGTTTGAGAAGGAGGACCCCGGCTTTGACGGCGCC
EST: gi|15372350|gb|BI531776.1|BI531776
EST:     GGCTAGAAGCGTCGCAATTGCGGACGTCACGCAAGATGGAGCCCGAGGTG                         TTCATGTACGACCAGGTGTTTGAGAAGGAGGACCCCGGCTTTGACGGCGCC
genomic: GGCTAGAAGCGTCGCAATTGCGGACGTCACGCAAGATGGAGCCCGAGGTGgtgagtccag ... caccacacagTTCATGTACGACCAGGTGTTTGAGAAGGAGGACCCCGGCTTTGACGGCGCC
EST: gi|161823303|gb|FC110110.1|FC110110
EST:     GGCTAGAAGCGTCGCAATTGCGGACGTCACGCAAGGTGGACCCCGAGGTG                         TTCATGTACGACCAGGTGTTTGAGAAGGAGGACCCCGGCTTTGACGGCGCC
genomic: GGCTAGAAGCGTCGCAATTGCGGACGTCACGCAAGATGGAGCCCGAGGTGgtgagtccag ... caccacacagTTCATGTACGACCAGGTGTTTGAGAAGGAGGACCCCGGCTTTGACGGCGCC
EST: gi|161812385|gb|FC095055.1|FC095055
EST:     GGCTAGAAGCGTCGCAATTGCGGACGTCACGCAAGGTGGACCCCGAGGTG                         TTCATGTACGACCAGGTGTTTGAGAAGGAGGACCCCGGCTTTGACGGCGCC
genomic: GGCTAGAAGCGTCGCAATTGCGGACGTCACGCAAGATGGAGCCCGAGGTGgtgagtccag ... caccacacagTTCATGTACGACCAGGTGTTTGAGAAGGAGGACCCCGGCTTTGACGGCGCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctcctgacccctccgtcttccttggccccgcccccctcccacacacaccacacagTTCATGTACGACCAGGTGTTTGAGAAGGAGGACCCCGGCTTTGACGGCGCCAGCCGCACACACCGGGACACCAAGAACAAAACCATGCTGTCGCGTGATC
 tcctgac  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
catcctttcacccgtccccaccgcacctctggtgccgctcgtcctctcctgacccctccgtcttccttggccccgcccccctcccacacacaccacacagTTCATGTACGACCAGGTGTTTGAGAAGGAGGACCCCGGCTTTGACGGCGCCAGCCGCACACACCGGGACACCAAGAACAAAACCATGCTGTCGCGTGATC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - caccgca