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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aagtaactgtatacttgtcattgcgtacgttgttcccggccgaccgacataaccacccgcccgccggccccctgctgtgtgtgtttgtttgtgtttgcagGTGGGCGCCTGGCTGCTGGCGGACATGGCGCACATCAGTGGCCTGGTGGCGGCGGACCTGGTGCCCTCGCCCTTCGGCTTCGCGGACGTGGTCACCACCA

Basic information

species Chlamydomonas reinhardtii
transcript EDO97448
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|10769510|gb|AV620335.1|AV620335
EST:     CCTACACCCGCCACTACGACTATGCCCGCATGCGCGCCATCGCCGACAAG                         GTGGGCGCCTGGCTGCTGGCGGACATGGCGCACATCAGTGGCCTGGTGGCG
genomic: CCTACACCCGCCACTACGACTATGCCCGCATGCGCGCCATCGCCGACAAGgtgcgggaaa ... gtgtttgcagGTGGGCGCCTGGCTGCTGGCGGACATGGCGCACATCAGTGGCCTGGTGGCG
EST: gi|6542592|gb|AV388376.1|AV388376
EST:     CCTACACCCGCCACTACGACTATGCCCGCATGCGCGCCATCGCCGACAAG                         GTGGGCGCCTGGCTGCTGGCGGACATGGCGCACATCAGTGGCCTGGTGGCG
genomic: CCTACACCCGCCACTACGACTATGCCCGCATGCGCGCCATCGCCGACAAGgtgcgggaaa ... gtgtttgcagGTGGGCGCCTGGCTGCTGGCGGACATGGCGCACATCAGTGGCCTGGTGGCG
EST: gi|10771707|gb|AV622530.1|AV622530
EST:     CCTACACCCGCCACTACGACTATGCCCGCATGCGCGCCATCGCCGACAAG                         GTGGGCGCCTGGCTGCTGGCGGACATGGCGCACATCAGTGGCCTGGTGGCG
genomic: CCTACACCCGCCACTACGACTATGCCCGCATGCGCGCCATCGCCGACAAGgtgcgggaaa ... gtgtttgcagGTGGGCGCCTGGCTGCTGGCGGACATGGCGCACATCAGTGGCCTGGTGGCG
EST: gi|6542140|gb|AV387924.1|AV387924
EST:     CCTACACCCGCCACTACGACTATGCCCGCATGCGCGCCATCGCCGACAAG                         GTGGGCGCCTGGCTGCTGGCGGACATGGCGCACATCAGTGGACTGGTGGCG
genomic: CCTACACCCGCCACTACGACTATGCCCGCATGCGCGCCATCGCCGACAAGgtgcgggaaa ... gtgtttgcagGTGGGCGCCTGGCTGCTGGCGGACATGGCGCACATCAGTGGCCTGGTGGCG
EST: gi|14229691|gb|BG848507.1|BG848507
EST:     CCTACACCCGCCACTACGACTATGCCCGCATGCGCGCCATCGCCGACAAG                         GTGGGCGCCTGGCTGCTGGCGGACATGGCGCACATCAGTGGCCTGGTGGCG
genomic: CCTACACCCGCCACTACGACTATGCCCGCATGCGCGCCATCGCCGACAAGgtgcgggaaa ... gtgtttgcagGTGGGCGCCTGGCTGCTGGCGGACATGGCGCACATCAGTGGCCTGGTGGCG
EST: gi|23363367|gb|BU651187.1|BU651187
EST:     CCTACACCCGCCACTACGACTATGCCCGCATGCGCGCCATCGCCGACAAG                         GTGGGCGCCTGGCTGC
genomic: CCTACACCCGCCACTACGACTATGCCCGCATGCGCGCCATCGCCGACAAGgtgcgggaaa ... gtgtttgcagGTGGGCGCCTGGCTGC
EST: gi|16072819|gb|BI874815.1|BI874815
EST:     CCTACACCCGCCACTACGACTATGCCCGCATGCGCGCCATCGCCGACAAG                         GTGGGCGCCTGGCTGCTGGCGGACATGGCGCACATCAGTGGCCTGGTGGCG
genomic: CCTACACCCGCCACTACGACTATGCCCGCATGCGCGCCATCGCCGACAAGgtgcgggaaa ... gtgtttgcagGTGGGCGCCTGGCTGCTGGCGGACATGGCGCACATCAGTGGCCTGGTGGCG
EST: gi|10771619|gb|AV622442.1|AV622442
EST:     CCTACACCCGCCACTACGACTATGCCCGCATGCGCGCCATCGCCGACAAG                         GTGGGCGCCTGGCTGCTGGCGGACATGGCGCACATCAGTGGCCTGGTGGCG
genomic: CCTACACCCGCCACTACGACTATGCCCGCATGCGCGCCATCGCCGACAAGgtgcgggaaa ... gtgtttgcagGTGGGCGCCTGGCTGCTGGCGGACATGGCGCACATCAGTGGCCTGGTGGCG
EST: gi|14229690|gb|BG848506.1|BG848506
EST:     CCTACACCCGCCACTACGACTATGCCCGCATGCGCGCCATCGCCGACAAG                         GTGGGCGCCTGGCTGCTGGCGGACATTGGCGCACATCAGTGGCCTGGTGGC
genomic: CCTACACCCGCCACTACGACTATGCCCGCATGCGCGCCATCGCCGACAAGgtgcgggaaa ... gtgtttgcagGTGGGCGCCTGGCTGCTGGCGGACA-TGGCGCACATCAGTGGCCTGGTGGC
EST: gi|23363125|gb|BU650945.1|BU650945
EST:     CCTACACCCGCCACTACGACTATGCCCGCATGCGCGCCATCGCCGACAAG                         GTGGGCGCCTGGCTGCTGGCGGACATGGCGCACATCAGTGGCCTGGTGGCG
genomic: CCTACACCCGCCACTACGACTATGCCCGCATGCGCGCCATCGCCGACAAGgtgcgggaaa ... gtgtttgcagGTGGGCGCCTGGCTGCTGGCGGACATGGCGCACATCAGTGGCCTGGTGGCG
EST: gi|6542099|gb|AV387883.1|AV387883
EST:     CCTACACCCGCCACTACGACTATGCCCGCATGCGCGCCATCGCCGACAAG                         GTGGGCGCCTGGCTGCTGGCGGACATGGCGCACATCAGTGGCCTGGTGGCG
genomic: CCTACACCCGCCACTACGACTATGCCCGCATGCGCGCCATCGCCGACAAGgtgcgggaaa ... gtgtttgcagGTGGGCGCCTGGCTGCTGGCGGACATGGCGCACATCAGTGGCCTGGTGGCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gacataaccacccgcccgccggccccctgctgtgtgtgtttgtttgtgtttgcagGTGGGCGCCTGGCTGCTGGCGGACATGGCGCACATCAGTGGCCTGGTGGCGGCGGACCTGGTGCCCTCGCCCTTCGGCTTCGCGGACGTGGTCACCACCA
 acataac  putative branch site (score: 3)
                                      tttgttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aagtaactgtatacttgtcattgcgtacgttgttcccggccgaccgacataaccacccgcccgccggccccctgctgtgtgtgtttgtttgtgtttgcagGTGGGCGCCTGGCTGCTGGCGGACATGGCGCACATCAGTGGCCTGGTGGCGGCGGACCTGGTGCCCTCGCCCTTCGGCTTCGCGGACGTGGTCACCACCA

- - - -tgtatac
- - - - - - - - - - ttgcgta
- - - - - - - - - - - - - - - - - - - - - - - - ataacca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgtgtgt