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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaggccacactcagtgcttgagtttctagggacatacaattgtcggctgggtagcaatagcagcacggcgcctctagatttgggcggtagctgatgaacacgtgataacaacggttccccgcacacgcagGTGAGCGCCAAAGCGCGCGCCCACAGCCGTTCTGGAGCAAGGCGCAGACCGGCTTTTTCAAACAG

Basic information

species Chlamydomonas reinhardtii
transcript EDO96958
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|15698785|gb|BI723090.1|BI723090
EST:     AACCTACCCGCCCAGCGAGTCGCACCTTGACCGCTCCGGGTCTCTCGACG                         GTGAGCGCCAA-GCGCGCG
genomic: AACCTACCCGCCCAGCGAGTCGCACCTTGACCGCTCCGGGTCTCTCGACGgtgaggccac ... gcacacgcagGTGAGCGCCAAAGCGCGCG
EST: gi|161821531|gb|FC109826.1|FC109826
EST:     AACCTACCCGCCCAGCGAGTCGCACCTTGACCGCTCCGGGTCTCTCGACG                         GTGAGCGCCAAAGCGCGCGCCCACAGCCGTTCTGGAGCAAGGCGCAGACCG
genomic: AACCTACCCGCCCAGCGAGTCGCACCTTGACCGCTCCGGGTCTCTCGACGgtgaggccac ... gcacacgcagGTGAGCGCCAAAGCGCGCGCCCACAGCCGTTCTGGAGCAAGGCGCAGACCG
EST: gi|14234975|gb|BG853791.1|BG853791
EST:     CCGCTCCGGGTCTCTCGACG                         GTGAGCGCCAAAGCGCGCGCCCACAGCCGTTCTGGAGCAAGGCGCAGACCG
genomic: CCGCTCCGGGTCTCTCGACGgtgaggccac ... gcacacgcagGTGAGCGCCAAAGCGCGCGCCCACAGCCGTTCTGGAGCAAGGCGCAGACCG
EST: gi|15368339|gb|BI527765.1|BI527765
EST:     CCGCTCCGGGTCTCTCGACG                         GTGAGCGCCAAAGCGCGCGCCCACAGCCGTTCTGGAGCAAGGCGCAGACCG
genomic: CCGCTCCGGGTCTCTCGACGgtgaggccac ... gcacacgcagGTGAGCGCCAAAGCGCGCGCCCACAGCCGTTCTGGAGCAAGGCGCAGACCG
EST: gi|22051865|gb|BQ809926.1|BQ809926
EST:     AACCTACCCGCCCAGCGAGTCGCACCTTGACCGCTCCGGGTCTCTCGACG                         GTGAGCGCCAAAGCGCGCGCCCACAGCCGTTCT
genomic: AACCTACCCGCCCAGCGAGTCGCACCTTGACCGCTCCGGGTCTCTCGACGgtgaggccac ... gcacacgcagGTGAGCGCCAAAGCGCGCGCCCACAGCCGTTCT
EST: gi|10127779|gb|BE726483.1|BE726483
EST:     AACCTACCCGCCCAGCGAGTCGCACCTTGACCGCTCCGGGTCTCTCGACG                         GTGAGCGCCAAAGCGCGCGCCCACAGCCGTTCTGGAGCAAGGCGCAGACCG
genomic: AACCTACCCGCCCAGCGAGTCGCACCTTGACCGCTCCGGGTCTCTCGACGgtgaggccac ... gcacacgcagGTGAGCGCCAAAGCGCGCGCCCACAGCCGTTCTGGAGCAAGGCGCAGACCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agatttgggcggtagctgatgaacacgtgataacaacggttccccgcacacgcagGTGAGCGCCAAAGCGCGCGCCCACAGCCGTTCTGGAGCAAGGCGCAGACCGGCTTTTTCAAACAG
                           tgataac  putative branch site (score: 2)
                                       ttccccgc  putative PPT
                             ataacaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgaggccacactcagtgcttgagtttctagggacatacaattgtcggctgggtagcaatagcagcacggcgcctctagatttgggcggtagctgatgaacacgtgataacaacggttccccgcacacgcagGTGAGCGCCAAAGCGCGCGCCCACAGCCGTTCTGGAGCAAGGCGCAGACCGGCTTTTTCAAACAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCAAG