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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagtcaggcctgccgcgcgtgcattaccaggctcgcaccaacaaaaggattgtgactgtctgcacagGTTCTTCCAGTTCTTGGCGAGCTTTATGATCCCCGGTCTGGGCATG

Basic information

species Chlamydomonas reinhardtii
transcript EDP04436
intron # 1
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|49468058|gb|BP095919.1|BP095919
EST:     GTCCAGGATGAGACGGCCGAGGACTTGCGGCCCCGGAACGTCATCGTTCG                         GTTCTTCCANGTTCT-GGCGAGCTTTATGATCCCCGGTCTGGGCATG
genomic: GTCCAGGATGAGACGGCCGAGGACTTGCGGCCCCGGAACGTCATCGTTCGgttagtcagg ... gtctgcacagGTTCTTCCA-GTTCTTGGCGAGCTTTATGATCCCCGGTCTGGGCATG
EST: gi|49468365|gb|BP096226.1|BP096226
EST:     GTCCAGGATGAGACGGCCGAGGACTTGCGGCCCCGGAACGTCATCGTTCG                         GTTCTTCCAGTTCTTGGCGAGCTTTATGATCCCCGGTCTGGGCATG
genomic: GTCCAGGATGAGACGGCCGAGGACTTGCGGCCCCGGAACGTCATCGTTCGgttagtcagg ... gtctgcacagGTTCTTCCAGTTCTTGGCGAGCTTTATGATCCCCGGTCTGGGCATG
EST: gi|10785423|gb|AV642095.1|AV642095
EST:     GTCCAGGATGAGACGGCCGAGGACTTGCGGCCCCGGAACGTCATCGTTCG                         GTTCTTCCAGTTCTTGGCGAGCTTTATGATCCCCGGTCTGGGCATG
genomic: GTCCAGGATGAGACGGCCGAGGACTTGCGGCCCCGGAACGTCATCGTTCGgttagtcagg ... gtctgcacagGTTCTTCCAGTTCTTGGCGAGCTTTATGATCCCCGGTCTGGGCATG
EST: gi|49468830|gb|BP096691.1|BP096691
EST:     GTCCAGGATGAGACGGCCGAGGACTTGCGGCCCCGGAACGTCATCGTTCG                         GTTCTTCCAGTTCTTGGCGAGCTTTATGATCCCCGGTCTGGGCATG
genomic: GTCCAGGATGAGACGGCCGAGGACTTGCGGCCCCGGAACGTCATCGTTCGgttagtcagg ... gtctgcacagGTTCTTCCAGTTCTTGGCGAGCTTTATGATCCCCGGTCTGGGCATG
EST: gi|14227718|gb|BG846534.1|BG846534
EST:     GTCCAGGATGAGACGGCCGAGGACTTGCGGCCCCGGAACGTCATCGTTCG                         GTTCTTCCAGTTCTTGGCGAGCTTTATGATCCCCGGTCTGGGCATG
genomic: GTCCAGGATGAGACGGCCGAGGACTTGCGGCCCCGGAACGTCATCGTTCGgttagtcagg ... gtctgcacagGTTCTTCCAGTTCTTGGCGAGCTTTATGATCCCCGGTCTGGGCATG
EST: gi|15700841|gb|BI725146.1|BI725146
EST:     GTCCAGGATGAGACGGCCGAGGACTTGCGGCCCCGGAACGTCATCGTTCG                         GTTCTTCCAGTTCTTGGCGAGCTTTATGATCCCCGGTCTGGGCATG
genomic: GTCCAGGATGAGACGGCCGAGGACTTGCGGCCCCGGAACGTCATCGTTCGgttagtcagg ... gtctgcacagGTTCTTCCAGTTCTTGGCGAGCTTTATGATCCCCGGTCTGGGCATG
EST: gi|15700843|gb|BI725148.1|BI725148
EST:     GTCCAGGATGAGACGGCCGAGGACTTGCGGCCCCGGAACGTCATCGTTCG                         GTTCTTCCAGTTCTTGGCGAGCTTTATGATCCCCGGTCTGGGCATG
genomic: GTCCAGGATGAGACGGCCGAGGACTTGCGGCCCCGGAACGTCATCGTTCGgttagtcagg ... gtctgcacagGTTCTTCCAGTTCTTGGCGAGCTTTATGATCCCCGGTCTGGGCATG
EST: gi|10787575|gb|AV644247.1|AV644247
EST:     GTCCAGGATGAGACGGCCGAGGACTTGCGGCCCCGGAACGTCATCGTTCG                         GTTCTTCCAGTTCTTGGCGAGCTTTATGATCCCCGGTCTGGGCATG
genomic: GTCCAGGATGAGACGGCCGAGGACTTGCGGCCCCGGAACGTCATCGTTCGgttagtcagg ... gtctgcacagGTTCTTCCAGTTCTTGGCGAGCTTTATGATCCCCGGTCTGGGCATG
EST: gi|15700842|gb|BI725147.1|BI725147
EST:     GTCCAGGATGAGACGGCCGAGGACTTGCGGCCCCGGAACGTCATCGTTCG                         GTTCTTCCAGTTCTTGGCGAGCTTTATGATCCCCGGTCTGGGCATG
genomic: GTCCAGGATGAGACGGCCGAGGACTTGCGGCCCCGGAACGTCATCGTTCGgttagtcagg ... gtctgcacagGTTCTTCCAGTTCTTGGCGAGCTTTATGATCCCCGGTCTGGGCATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccgcgcgtgcattaccaggctcgcaccaacaaaaggattgtgactgtctgcacagGTTCTTCCAGTTCTTGGCGAGCTTTATGATCCCCGGTCTGGGCATG
                           aacaaaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttagtcaggcctgccgcgcgtgcattaccaggctcgcaccaacaaaaggattgtgactgtctgcacagGTTCTTCCAGTTCTTGGCGAGCTTTATGATCCCCGGTCTGGGCATG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGCTT