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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gggagccggtggattatgttgcatgtgagtggacacttcgcagctttcctgtcagccggggcccctccataagctcactcggcctcatctcacctggcagACACGGTGACCAAGCTGCTCCGCAACATGGAGTACATCTCGTACGCGGCCACGGCCGGCAAGGTGTACGACAACCTGGACGAGTGCGAGCAGAAGTTCAA

Basic information

species Chlamydomonas reinhardtii
transcript EDO97201
intron # 5
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|16434220|gb|BI999446.1|BI999446
EST:     CGAGCAGTTCGACACGGAGGACGAGGAGGGGCTGCACTACATCCTGCAGG                         ACACGGTGACCAAGCTGCTCCGCAACATGGAGTACATCTCGTACGCGGCCA
genomic: CGAGCAGTTCGACACGGAGGACGAGGAGGGGCTGCACTACATCCTGCAGGgtgagggcga ... cacctggcagACACGGTGACCAAGCTGCTCCGCAACATGGAGTACATCTCGTACGCGGCCA
EST: gi|15691925|gb|BI716230.1|BI716230
EST:     CGAGCAGTTCGACACGGAGGACGAGGAGGGGCTGCACTACATCCTGCAGG                         ACACGGTGACCAAGCTGCTCCGCAACATGGAGTACATCTCGTACGCGGCCA
genomic: CGAGCAGTTCGACACGGAGGACGAGGAGGGGCTGCACTACATCCTGCAGGgtgagggcga ... cacctggcagACACGGTGACCAAGCTGCTCCGCAACATGGAGTACATCTCGTACGCGGCCA
EST: gi|15373328|gb|BI532754.1|BI532754
EST:     CGAGCAGTTCGACACGGAGGACGAGGAGGGGCTGCACTACATCCTGCAGG                         ACACGGTGACCAAGCTGCTCCGCAACATGGAGTACATCTCGTACGCGGCCA
genomic: CGAGCAGTTCGACACGGAGGACGAGGAGGGGCTGCACTACATCCTGCAGGgtgagggcga ... cacctggcagACACGGTGACCAAGCTGCTCCGCAACATGGAGTACATCTCGTACGCGGCCA
EST: gi|9441247|gb|BE441851.1|BE441851
EST:     CGAGCAGTTCGACACGGAGGACGAGGAGGGGCTGCACTACATCCTGCAGG                         ACACGGTGACCAAGCTGCTCCGCAACATGGAGTACATCTCGTACGCGGCCA
genomic: CGAGCAGTTCGACACGGAGGACGAGGAGGGGCTGCACTACATCCTGCAGGgtgagggcga ... cacctggcagACACGGTGACCAAGCTGCTCCGCAACATGGAGTACATCTCGTACGCGGCCA
EST: gi|161805835|gb|FC092789.1|FC092789
EST:     CGAGCAGTTCGACACGGAGGACGAGGAGGGGCTGCACTACATCCTGCAGG                         ACACGGTGACCAAGCTGCTCCGCAACATGGAGTACATCTCGTACGCGGCCA
genomic: CGAGCAGTTCGACACGGAGGACGAGGAGGGGCTGCACTACATCCTGCAGGgtgagggcga ... cacctggcagACACGGTGACCAAGCTGCTCCGCAACATGGAGTACATCTCGTACGCGGCCA
EST: gi|6542556|gb|AV388340.1|AV388340
EST:     CGAGCAGTTCGACACGGAGGACGAGGAGGGGCTGCACTACATCCTGCAGG                         ACACGGTGACCAAGCTGCTCCGCAACATGGAGTACATCTCGTACGCGGCCA
genomic: CGAGCAGTTCGACACGGAGGACGAGGAGGGGCTGCACTACATCCTGCAGGgtgagggcga ... cacctggcagACACGGTGACCAAGCTGCTCCGCAACATGGAGTACATCTCGTACGCGGCCA
EST: gi|15692209|gb|BI716514.1|BI716514
EST:     CGAGCAGTTCGACACGGAGGACGAGGAGGGGCTGCACTACATCCTGCAGG                         ACACGGTGACCAAGCTGCTCCGCAACATGGAGTACATCTCGTACGCGGCCA
genomic: CGAGCAGTTCGACACGGAGGACGAGGAGGGGCTGCACTACATCCTGCAGGgtgagggcga ... cacctggcagACACGGTGACCAAGCTGCTCCGCAACATGGAGTACATCTCGTACGCGGCCA
EST: gi|161817585|gb|FC103241.1|FC103241
EST:     CGAGCAGTTCGACACGGAGGACGAGGAGGGGCTGCACTACATCCTGCAGG                         ACACGGTGACCAAGCTGCTCCGCAACATGGAGTACATCTCGTACGCGGCCA
genomic: CGAGCAGTTCGACACGGAGGACGAGGAGGGGCTGCACTACATCCTGCAGGgtgagggcga ... cacctggcagACACGGTGACCAAGCTGCTCCGCAACATGGAGTACATCTCGTACGCGGCCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcctgtcagccggggcccctccataagctcactcggcctcatctcacctggcagACACGGTGACCAAGCTGCTCCGCAACATGGAGTACATCTCGTACGCGGCCACGGCCGGCAAGGTGTACGACAACCTGGACGAGTGCGAGCAGAAGTTCAA
                                         atctcac  putative branch site (score: 3)
                                     cctcatctc  CT-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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gggagccggtggattatgttgcatgtgagtggacacttcgcagctttcctgtcagccggggcccctccataagctcactcggcctcatctcacctggcagACACGGTGACCAAGCTGCTCCGCAACATGGAGTACATCTCGTACGCGGCCACGGCCGGCAAGGTGTACGACAACCTGGACGAGTGCGAGCAGAAGTTCAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - attatgt
- - - - - - - - - - - -tgtgagt
- - - - - - - - - - - - - - - - acacttc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aagctca