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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgcagtaatgcctcacacccccacttccttaactaatcatgaatgtaacccccaacctcaccacccagtctcataaatcctcctcctcgtcgccgcgcagGTGGCAGCCAACCAGCTCATCCTGGCGCCCATCACGCTCACGTCTGTGTTCGGCTTCAACCTGGCGCTGACGGGCAAGGCGGACCTCATCGGGGACAAAA

Basic information

species Chlamydomonas reinhardtii
transcript EDP04567
intron # 2
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|15704522|gb|BI728827.1|BI728827
EST:     TGCTTGACTTCCTGATGCCGGTGAAGACCACCGCCACCTTCCTGGGCAAG                         GTGGCAGCCAACCAGCTCATCCTGGCGCCCATCACGCTCACGTCTGTGTTC
genomic: TGCTTGACTTCCTGATGCCGGTGAAGACCACCGCCACCTTCCTGGGCAAGgtgcggcgga ... cgccgcgcagGTGGCAGCCAACCAGCTCATCCTGGCGCCCATCACGCTCACGTCTGTGTTC
EST: gi|15370489|gb|BI529915.1|BI529915
EST:     TGCTTGACTTCCTGATGCCGGTGAAGACCACCGCCACCTTCCTGGGCAAG                         GNGGCAGCCAACCAGCTCATCCTGGCGCCCATCACGCTCACGTGCTGGGAT
genomic: TGCTTGACTTCCTGATGCCGGTGAAGACCACCGCCACCTTCCTGGGCAAGgtgcggcgga ... cgccgcgcagGTGGCAGCCAACCAGCTCATCCTGGCGCCCATCACGCTCACGT-CTGTG-T
EST: gi|10768348|gb|AV619173.1|AV619173
EST:     TGCTTGACTTCCTGATGCCGGTGAAGACCACCGCCACCTTCCTGGGCAAG                         GTGGCAGCCAACCAGCTCATCCTGGCGCCCATCACGCTCACGTCTGTGTTC
genomic: TGCTTGACTTCCTGATGCCGGTGAAGACCACCGCCACCTTCCTGGGCAAGgtgcggcgga ... cgccgcgcagGTGGCAGCCAACCAGCTCATCCTGGCGCCCATCACGCTCACGTCTGTGTTC
EST: gi|161816807|gb|FC101332.1|FC101332
EST:     TGCTTGACTTCCTGATGCCGGTGAAGACCACAGCCACCTTCCTGAGCAAG                         GTGGCAGCCAACCAGCTCATCCTGGCGCCCATCACGCTCACGTCTGTGTTC
genomic: TGCTTGACTTCCTGATGCCGGTGAAGACCACCGCCACCTTCCTGGGCAAGgtgcggcgga ... cgccgcgcagGTGGCAGCCAACCAGCTCATCCTGGCGCCCATCACGCTCACGTCTGTGTTC
EST: gi|10127295|gb|BE725999.1|BE725999
EST:     TGCTTGACTTCCTGATGCCGGTGAAGACCACCGCCACCTTCCTGGGCAAG                         GTGGCAGCCAACCAGCTCATCCTGGCGCCCATCACGCTCACGTCTGTGTTC
genomic: TGCTTGACTTCCTGATGCCGGTGAAGACCACCGCCACCTTCCTGGGCAAGgtgcggcgga ... cgccgcgcagGTGGCAGCCAACCAGCTCATCCTGGCGCCCATCACGCTCACGTCTGTGTTC
EST: gi|15702493|gb|BI726798.1|BI726798
EST:     TGCTTGACTTCCTGATGCCGGTGAAGACCACCGCCACCTTCCTGGGCAAG                         GTGGCAGCCAACCAGCTCATCCTGGCGCCCATCACGCTCACGTCTGTGTTC
genomic: TGCTTGACTTCCTGATGCCGGTGAAGACCACCGCCACCTTCCTGGGCAAGgtgcggcgga ... cgccgcgcagGTGGCAGCCAACCAGCTCATCCTGGCGCCCATCACGCTCACGTCTGTGTTC
EST: gi|16437039|gb|BM002259.1|BM002259
EST:     TGCTTGACTTCCTGATGCCGGTGAAGACCACCGCCACCTTCCTGGGCAAG                         GTGGCAGCCAACCAGCTCATCCTGGCGCCCATCACGCTCACGTCTGTGTTC
genomic: TGCTTGACTTCCTGATGCCGGTGAAGACCACCGCCACCTTCCTGGGCAAGgtgcggcgga ... cgccgcgcagGTGGCAGCCAACCAGCTCATCCTGGCGCCCATCACGCTCACGTCTGTGTTC
EST: gi|161811108|gb|FC097170.1|FC097170
EST:     TGCTTGACTTCCTGATGCCGGTGAAGACCACAGCCACCTTCCTGAGCAAG                         GTGGCAGCCAACCAGCTCATCCTGGCGCCCATCACGCTCACGTCTGTGTTC
genomic: TGCTTGACTTCCTGATGCCGGTGAAGACCACCGCCACCTTCCTGGGCAAGgtgcggcgga ... cgccgcgcagGTGGCAGCCAACCAGCTCATCCTGGCGCCCATCACGCTCACGTCTGTGTTC
EST: gi|161813296|gb|FC103103.1|FC103103
EST:     TGCTTGACTTCCTGATGCCGGTGAAGACCACAGCCACCTTCCTGAGCAAG                         GTGGCAGCCAACCAGCTCATCCTGGCGCCCATCACGCTCACGTCTGTGTTC
genomic: TGCTTGACTTCCTGATGCCGGTGAAGACCACCGCCACCTTCCTGGGCAAGgtgcggcgga ... cgccgcgcagGTGGCAGCCAACCAGCTCATCCTGGCGCCCATCACGCTCACGTCTGTGTTC
EST: gi|8933179|gb|BE227940.1|BE227940
EST:     TGCTTGACTTCCTGATGCCGGTGAAGACCACCGCCACCTTCCTGGGCAAG                         GTGGCAGCCAACCAGCTCATCCTGGCGCCCATCACGCTCACGTCTGTGTTC
genomic: TGCTTGACTTCCTGATGCCGGTGAAGACCACCGCCACCTTCCTGGGCAAGgtgcggcgga ... cgccgcgcagGTGGCAGCCAACCAGCTCATCCTGGCGCCCATCACGCTCACGTCTGTGTTC
EST: gi|16435172|gb|BM000392.1|BM000392
EST:     TGCTTGACTTCCTGATGCCGGTGAAGACCACCGCCACCTTCCTGGGCAAG                         GTGGCAGCCAACCAGCTCATCCTGGCGCCCATCACGCTCACGTCTGTGTTC
genomic: TGCTTGACTTCCTGATGCCGGTGAAGACCACCGCCACCTTCCTGGGCAAGgtgcggcgga ... cgccgcgcagGTGGCAGCCAACCAGCTCATCCTGGCGCCCATCACGCTCACGTCTGTGTTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taacccccaacctcaccacccagtctcataaatcctcctcctcgtcgccgcgcagGTGGCAGCCAACCAGCTCATCCTGGCGCCCATCACGCTCACGTCTGTGTTCGGCTTCAACCTGGCGCTGACGGGCAAGGCGGACCTCATCGGGGACAAAA
         acctcac  putative branch site (score: 3)
                                tcctcctcctcgtcgc  putative PPT
                         tcataaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tgcagtaatgcctcacacccccacttccttaactaatcatgaatgtaacccccaacctcaccacccagtctcataaatcctcctcctcgtcgccgcgcagGTGGCAGCCAACCAGCTCATCCTGGCGCCCATCACGCTCACGTCTGTGTTCGGCTTCAACCTGGCGCTGACGGGCAAGGCGGACCTCATCGGGGACAAAA

- - - - - - -cacaccc
- - - - - - - - - - - - - - - - - - - -tgaatgt
- - - - - - - - - - - - - - - - - - - - - - - aaccccc
- - - - - - - - - - - - - - - - - - - - - - - - - - -aacctca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccaccca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tcataaa