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'   		10  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagctccgttccagcgtgtcaacagagcgttgaccccgtttggtgatttcaccttagtctgtcgtctaacctaggctttgccacttcccacagCGCGTCGGCCTCGTCGCACCTTGTACATGGACCGCGTCAG

Basic information

species Chlamydomonas reinhardtii
transcript EDP04518
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|16436439|gb|BM001659.1|BM001659
EST:     GCGTCAAGAATGCTAACTTCGCCTCGTTGCTGTGGTCGCGTTGGCAGCCG                         CGCGTCGGCCTCGTCGCACCTTGTACATGGACCGCGTCAG
genomic: GCGTCAAGAATGCTAACTTCGCCTCGTTGCTGTGGTCGCGTTGGCAGCCGgtgagctccg ... cttcccacagCGCGTCGGCCTCGTCGCACCTTGTACATGGACCGCGTCAG
EST: gi|15692659|gb|BI716964.1|BI716964
EST:     GCGTCAAGAATGCTAACTTCGCCTCGTTGCTGTGGTCGCGTTGGCAGCCG                         CGCGTCGGCCTCGTCGCACCTTGTACATGGACCGCGTCAG
genomic: GCGTCAAGAATGCTAACTTCGCCTCGTTGCTGTGGTCGCGTTGGCAGCCGgtgagctccg ... cttcccacagCGCGTCGGCCTCGTCGCACCTTGTACATGGACCGCGTCAG
EST: gi|10127120|gb|BE725824.1|BE725824
EST:     GCGTCAAGAATGCTAACTTCGCCTCGTTGCTGTGGTCGCGTTGGCAGCCG                         CGCGTCGGCCTCGTCGCACCTTGTACATGGACCGCGTCAG
genomic: GCGTCAAGAATGCTAACTTCGCCTCGTTGCTGTGGTCGCGTTGGCAGCCGgtgagctccg ... cttcccacagCGCGTCGGCCTCGTCGCACCTTGTACATGGACCGCGTCAG
EST: gi|10778893|gb|AV635573.1|AV635573
EST:     GCGTCAAGAATGCTAACTTCGCCTCGTTGCTGTGGTCGCGTTGGCAGCCG                         CGCGTCGGCCTCGTCGCACCTTGTACATGGACCGCGTCAG
genomic: GCGTCAAGAATGCTAACTTCGCCTCGTTGCTGTGGTCGCGTTGGCAGCCGgtgagctccg ... cttcccacagCGCGTCGGCCTCGTCGCACCTTGTACATGGACCGCGTCAG
EST: gi|23363546|gb|BU651366.1|BU651366
EST:     GCGTCAAGAATGCTAACTTCGCCTCGTTGCTGTGGTCGCGTTGGCAGCCG                         CGCGTCGGCCTCGTCGCACCTTGTACATGGACCGCGTCAG
genomic: GCGTCAAGAATGCTAACTTCGCCTCGTTGCTGTGGTCGCGTTGGCAGCCGgtgagctccg ... cttcccacagCGCGTCGGCCTCGTCGCACCTTGTACATGGACCGCGTCAG
EST: gi|22071548|gb|BQ820886.1|BQ820886
EST:     GGTCGCGTTGGCAGCCG                         CGCGTCGGCCTCGTCGCACCTTGTACATGGACCGCGTCAG
genomic: GGTCGCGTTGGCAGCCGgtgagctccg ... cttcccacagCGCGTCGGCCTCGTCGCACCTTGTACATGGACCGCGTCAG
EST: gi|23367454|gb|BU655272.1|BU655272
EST:     GCGTCAAGAATGCTAACTTCGCCTCGTTGCTGTGGTCGCGTTGGCAGCCG                         CGCGTCGGCCTCGTCGCACCTTGTACATGGACCGCGTCAG
genomic: GCGTCAAGAATGCTAACTTCGCCTCGTTGCTGTGGTCGCGTTGGCAGCCGgtgagctccg ... cttcccacagCGCGTCGGCCTCGTCGCACCTTGTACATGGACCGCGTCAG
EST: gi|49460677|gb|BP088590.1|BP088590
EST:     GCGTCAAGAATGCTAACTTCGCCTCGTTGCTGTGGTCGCGTTGGCAGCCG                         CGCGTCGGCCTCGTCGCACCTTGTACATGGACCGCGTCAG
genomic: GCGTCAAGAATGCTAACTTCGCCTCGTTGCTGTGGTCGCGTTGGCAGCCGgtgagctccg ... cttcccacagCGCGTCGGCCTCGTCGCACCTTGTACATGGACCGCGTCAG
EST: gi|49464379|gb|BP092292.1|BP092292
EST:     GCGTCAAGAATGCTAACTTCGCCTCGTTGCTGTGGTCGCGTTGGCAGCCG                         CGCGTCGGCCTCGTCGCACCTTGTACATGGACCGCGTCAG
genomic: GCGTCAAGAATGCTAACTTCGCCTCGTTGCTGTGGTCGCGTTGGCAGCCGgtgagctccg ... cttcccacagCGCGTCGGCCTCGTCGCACCTTGTACATGGACCGCGTCAG
EST: gi|15691778|gb|BI716083.1|BI716083
EST:     GCGTCAAGAATGCTAACTTCGCCTCGTTGCTGTGGTCGCGTTGGCAGCCG                         CGCGTCGGCCTCGTCGCACCTTGTACATGGACCGCGTCAG
genomic: GCGTCAAGAATGCTAACTTCGCCTCGTTGCTGTGGTCGCGTTGGCAGCCGgtgagctccg ... cttcccacagCGCGTCGGCCTCGTCGCACCTTGTACATGGACCGCGTCAG
EST: gi|49461802|gb|BP089715.1|BP089715
EST:     GCGTCAAGAATGCTAACTTCGCCTCGTTGCTGTGGTCGCGTTGGCAGCCG                         CGCGTCGGCCTCGTCGCACCTTGTACATGGACCGCGTCAG
genomic: GCGTCAAGAATGCTAACTTCGCCTCGTTGCTGTGGTCGCGTTGGCAGCCGgtgagctccg ... cttcccacagCGCGTCGGCCTCGTCGCACCTTGTACATGGACCGCGTCAG
EST: gi|22067969|gb|BQ817952.1|BQ817952
EST:     GCGTCAAGAATGCTAACTTCGCCTCGTTGCTGTGGTCGCGTTGGCAGCCG                         CGCGTCGGCCTCGTCGCACCTTGTACATGGACCGCGTCAG
genomic: GCGTCAAGAATGCTAACTTCGCCTCGTTGCTGTGGTCGCGTTGGCAGCCGgtgagctccg ... cttcccacagCGCGTCGGCCTCGTCGCACCTTGTACATGGACCGCGTCAG
EST: gi|7616248|gb|AW721688.1|AW721688
EST:     GCGTCAAGAATGCTAACTTCGCCTCGTTGCTGTGGTCGCGTTGGCAGCCG                         CGCGTCGGCCTCGTCGCACCTTGTACATGGACCGCGTCAG
genomic: GCGTCAAGAATGCTAACTTCGCCTCGTTGCTGTGGTCGCGTTGGCAGCCGgtgagctccg ... cttcccacagCGCGTCGGCCTCGTCGCACCTTGTACATGGACCGCGTCAG
EST: gi|10779463|gb|AV636143.1|AV636143
EST:     GCGTCAAGAATGCTAACTTCGCCTCGTTGCTGTGGTCGCGTTGGCAGCCG                         CGCGTCGGCCTCGTCGCACCTTGTACATGGACCGCGTCAG
genomic: GCGTCAAGAATGCTAACTTCGCCTCGTTGCTGTGGTCGCGTTGGCAGCCGgtgagctccg ... cttcccacagCGCGTCGGCCTCGTCGCACCTTGTACATGGACCGCGTCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttggtgatttcaccttagtctgtcgtctaacctaggctttgccacttcccacagCGCGTCGGCCTCGTCGCACCTTGTACATGGACCGCGTCAG
                         gtctaac  putative branch site (score: 2)
                                     ctttgccacttccc  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgagctccgttccagcgtgtcaacagagcgttgaccccgtttggtgatttcaccttagtctgtcgtctaacctaggctttgccacttcccacagCGCGTCGGCCTCGTCGCACCTTGTACATGGACCGCGTCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA