Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   		9  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gccataccggcaagccgtgtacgcggcgtgtagctagcgcttacaacctgttctactgctcgcaactaacgccttgtacttcatacctttgcgacttcagGTGGGTGACAAGATTGAGTACATCAAGTTCGTGGACGGCAAGGAGAACCTGAAGAACAGCCCGTAAATCCGCGGGGAGAGGTTGACGTTATGGGATGAGG

Basic information

species Chlamydomonas reinhardtii
transcript EDP04524
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|15692003|gb|BI716308.1|BI716308
EST:     CCGTGTTCGGCTACATCACGCAGGGCCAGGACGCGTTGGCGGACTTCAGG                         GTGGGTGGCAAGATTGAGTACATCAAGTTCGTGGACGGCAAGGAGAACCTG
genomic: CCGTGTTCGGCTACATCACGCAGGGCCAGGACGCGTTGGCGGACTTCAGGgtgagagggg ... gcgacttcagGTGGGTGACAAGATTGAGTACATCAAGTTCGTGGACGGCAAGGAGAACCTG
EST: gi|16436444|gb|BM001664.1|BM001664
EST:     CCGTGTTCGGCTACATCACGCAGGGCCAGGACGCGTTGGCGGACTTCAGG                         GTGGGTGACAAGATTGAGTACATCAAGTTCGTGGACGGCAAGGAGAACCTG
genomic: CCGTGTTCGGCTACATCACGCAGGGCCAGGACGCGTTGGCGGACTTCAGGgtgagagggg ... gcgacttcagGTGGGTGACAAGATTGAGTACATCAAGTTCGTGGACGGCAAGGAGAACCTG
EST: gi|6548251|gb|AV394035.1|AV394035
EST:     CCGTGTTCGGCTACATCACGCAGGGCCAGGACGCGTTGGCGGACTTCAGG                         GTGGGTGACAAGATTGAGTACATCAAGTTCGTGGACGGCAAGGAGAACCTG
genomic: CCGTGTTCGGCTACATCACGCAGGGCCAGGACGCGTTGGCGGACTTCAGGgtgagagggg ... gcgacttcagGTGGGTGACAAGATTGAGTACATCAAGTTCGTGGACGGCAAGGAGAACCTG
EST: gi|14229849|gb|BG848665.1|BG848665
EST:     CCGTGTTCGGCTACATCACGCAGGGCCAGGACGCGTTGGCGGACTTCAGG                         GTGGGTGACAAGATTGAGTACATCAAGTTCGTGGACGGCAAGGAGAACCTG
genomic: CCGTGTTCGGCTACATCACGCAGGGCCAGGACGCGTTGGCGGACTTCAGGgtgagagggg ... gcgacttcagGTGGGTGACAAGATTGAGTACATCAAGTTCGTGGACGGCAAGGAGAACCTG
EST: gi|10774209|gb|AV625032.1|AV625032
EST:     CCGTGTTCGGCTACATCACGCAGGGCCAGGACGCGTTGGCGGACTTCAGG                         GTGGGTGACAAGATTGAGTACATCAAGTTCGTGGACGGCAAGGAGAACCTG
genomic: CCGTGTTCGGCTACATCACGCAGGGCCAGGACGCGTTGGCGGACTTCAGGgtgagagggg ... gcgacttcagGTGGGTGACAAGATTGAGTACATCAAGTTCGTGGACGGCAAGGAGAACCTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acctgttctactgctcgcaactaacgccttgtacttcatacctttgcgacttcagGTGGGTGACAAGATTGAGTACATCAAGTTCGTGGACGGCAAGGAGAACCTGAAGAACAGCCCGTAAATCCGCGGGGAGAGGTTGACGTTATGGGATGAGG
                  aactaac  putative branch site (score: 1)
                                        cctttgc  putative PPT
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gccataccggcaagccgtgtacgcggcgtgtagctagcgcttacaacctgttctactgctcgcaactaacgccttgtacttcatacctttgcgacttcagGTGGGTGACAAGATTGAGTACATCAAGTTCGTGGACGGCAAGGAGAACCTGAAGAACAGCCCGTAAATCCGCGGGGAGAGGTTGACGTTATGGGATGAGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGAGG
- - - - - - - - - - - - -gcgtgta
- - - - - - - - - - - - - - - - - - - -cttacaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aactaac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tcatacc