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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCCAAGACCACCAAGAAGATCGTGCTGCGCATGCAGTGCCAAGAGTGCAAGCAGACCTGCATGAAGGGCCTGAAGgtgggtggggcgccagatgtggggcactgatacgcttgcgggctgtgttgtggcacggatcaacagtaaaccggacgaagcattgtggctggggtggggaagcgacagtacaagccagcaacttgtgcccgtgcatgcgccagtggcctctgacgccgttcgctccgctccaacgctcgcccgttcttccccacag

Basic information

species Chlamydomonas reinhardtii
transcript EDP05070
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: EDP05070 (Chlamydomonas reinhardtii), 5'ss of exon 4
lower sequence: EFJ05955 (Selaginella moellendorffii), 5'ss of exon 4
GCCAAGACCACCAAGAAGATCGTGCTGCGCATGCAGTGCCAAGAGTGCAAGCAGACCTGCATGAAGGGCCTGAAGgtgggtggggcgccagatgtggggcactgatacgcttgcgggctgtgttgtggcacggatcaacagtaaaccggacgaagcattgtggctggggtggggaagcgacagtacaagccagcaacttgtgcccgtgcatgcgccagtggcctctgacgccgttcgctccgctccaacgctcgcccgttcttccccacag
|||||||||||||||||||||||||| ||  | ||||||||   ||||||||     |    | |    || ||||||||       |    ||   | | |||||      |  |||| | |||     |                                                                                                                                            
GCCAAGACCACCAAGAAGATCGTGCTCCGGCTCCAGTGCCAGACGTGCAAGCGCGTGTCGCAGCACCCTCTAAAGgtggg-atttttctctttgctcgtccctgat-----cgatggctttcttgcaaatccag-----------------------------------------------------------------------------------------------------------------------------------------
















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|7709538|gb|AW772956.1|AW772956
EST:     TGCGCATGCAGTGCCAAGAGTGCAAGCAGACCTGCATGAAGGGCCTGAAG                         CGCTGCAAGCACTTCGAGATCGGTGGTGACAAGAAGAAGGGCAACTAAACG
genomic: TGCGCATGCAGTGCCAAGAGTGCAAGCAGACCTGCATGAAGGGCCTGAAGgtgggtgggg ... ttccccacagCGCTGCAAGCACTTCGAGATCGGTGGTGACAAGAAGAAGGGCAACTAAACG
EST: gi|34987515|gb|CF561432.1|CF561432
EST:     TGCGCATGCAGTGCCAAGAGTGCAAGCAGACCTGCATGAAGGGCCTGAAG                         CGCTGCAAGCACTTCGAGATCGGTGGTGACAAGAAGAAGGGCAACTAAACG
genomic: TGCGCATGCAGTGCCAAGAGTGCAAGCAGACCTGCATGAAGGGCCTGAAGgtgggtgggg ... ttccccacagCGCTGCAAGCACTTCGAGATCGGTGGTGACAAGAAGAAGGGCAACTAAACG
EST: gi|22066976|gb|BQ817267.1|BQ817267
EST:     TGCGCATGCAGTGCCAAGAGTGCAAGCAGACCTGCATGAAGGGCCTGAAG                         CGCTGCAAGCACTTCGAGATCGGTGGTGACAAGAAGAAGGGCAACTAAACG
genomic: TGCGCATGCAGTGCCAAGAGTGCAAGCAGACCTGCATGAAGGGCCTGAAGgtgggtgggg ... ttccccacagCGCTGCAAGCACTTCGAGATCGGTGGTGACAAGAAGAAGGGCAACTAAACG
EST: gi|34987514|gb|CF561431.1|CF561431
EST:     TGCGCATGCAGTGCCAAGAGTGCAAGCAGACCTGCATGAAGGGCCTGAAG                         CGCTGCAAGCACTTCGAGATCGGTGGTGACAAGAAGAAGGGCAACTAAACG
genomic: TGCGCATGCAGTGCCAAGAGTGCAAGCAGACCTGCATGAAGGGCCTGAAGgtgggtgggg ... ttccccacagCGCTGCAAGCACTTCGAGATCGGTGGTGACAAGAAGAAGGGCAACTAAACG
EST: gi|10786240|gb|AV642912.1|AV642912
EST:     TGCGCATGCAGTGCCAAGAGTGCAAGCAGACCTGCATGAAGGGCCTGAAG                         CGCTGCAAGCACTTCGAGATCGGTGGTGACAAGAAGAAGGGCAACTAAACG
genomic: TGCGCATGCAGTGCCAAGAGTGCAAGCAGACCTGCATGAAGGGCCTGAAGgtgggtgggg ... ttccccacagCGCTGCAAGCACTTCGAGATCGGTGGTGACAAGAAGAAGGGCAACTAAACG
EST: gi|34984015|gb|CF557932.1|CF557932
EST:     TGCGCATGCAGTGCCAAGAGTGCAAGCAGACCTGCATGAAGGGCCTGAAG                         CGCTGCAAGCACTTCGAGATCGGTGGTGACAAGAAGAAGGGCAACTAAACG
genomic: TGCGCATGCAGTGCCAAGAGTGCAAGCAGACCTGCATGAAGGGCCTGAAGgtgggtgggg ... ttccccacagCGCTGCAAGCACTTCGAGATCGGTGGTGACAAGAAGAAGGGCAACTAAACG
EST: gi|34988612|gb|CF562529.1|CF562529
EST:     TGCGCATGCAGTGCCAAGAGTGCAAGCAGACCTGCATGAAGGGCCTGAAG                         CGCTGCAAGCACTTCGAGATCGGTGGTGACAAGAAGAAGGGCAACTAAACG
genomic: TGCGCATGCAGTGCCAAGAGTGCAAGCAGACCTGCATGAAGGGCCTGAAGgtgggtgggg ... ttccccacagCGCTGCAAGCACTTCGAGATCGGTGGTGACAAGAAGAAGGGCAACTAAACG
EST: gi|7546035|gb|AW676523.1|AW676523
EST:     TGCGCATGCAGTGCCAAGAGTGCAAGCAGACCTGCATGAAGGGCCTGAAG                         CGCTGCAAGCACTTCGAGATCGGTGGTGACAAGAAGAAGGGCAACTAAACG
genomic: TGCGCATGCAGTGCCAAGAGTGCAAGCAGACCTGCATGAAGGGCCTGAAGgtgggtgggg ... ttccccacagCGCTGCAAGCACTTCGAGATCGGTGGTGACAAGAAGAAGGGCAACTAAACG
EST: gi|22055211|gb|BQ811714.1|BQ811714
EST:     TGCGCATGCAGTGCCAAGAGTGCAAGCAGACCTGCATGAAGGGCCTGAAG                         CGCTGCAAGCACTTCGAGATCGGTGGTGACAAGAAGAAGGGCAACTAAACG
genomic: TGCGCATGCAGTGCCAAGAGTGCAAGCAGACCTGCATGAAGGGCCTGAAGgtgggtgggg ... ttccccacagCGCTGCAAGCACTTCGAGATCGGTGGTGACAAGAAGAAGGGCAACTAAACG
EST: gi|34989445|gb|CF563362.1|CF563362
EST:     GCAGTGCCAAGAGTGCAAGCAGACCTGCATGAAGGGCCTGAAG                         CGCTGCAAGCACTTCGAGATCGGTGGTGACAAGAAGAAGGGCAACTAAACG
genomic: GCAGTGCCAAGAGTGCAAGCAGACCTGCATGAAGGGCCTGAAGgtgggtgggg ... ttccccacagCGCTGCAAGCACTTCGAGATCGGTGGTGACAAGAAGAAGGGCAACTAAACG
EST: gi|34983766|gb|CF557683.1|CF557683
EST:     TGCGCATGCAGTGCCAAGAGTGCAAGCAGACCTGCATGAAGGGCCTGAAG                         CGCTGCAAGCACTTCGAGATCGGTGGTGACAAGAAGAAGGGCAACTAAACG
genomic: TGCGCATGCAGTGCCAAGAGTGCAAGCAGACCTGCATGAAGGGCCTGAAGgtgggtgggg ... ttccccacagCGCTGCAAGCACTTCGAGATCGGTGGTGACAAGAAGAAGGGCAACTAAACG
EST: gi|161805193|gb|FC091718.1|FC091718
EST:     TGCGCATGCAGTGCCAAGAGTGCAAGCAGACCTGCATGAAGGGCCTGAAG                         CGCTGCAAGCACTTCGAGATCGGTGGTGACAAGAAGAAGGGCAACTAAACG
genomic: TGCGCATGCAGTGCCAAGAGTGCAAGCAGACCTGCATGAAGGGCCTGAAGgtgggtgggg ... ttccccacagCGCTGCAAGCACTTCGAGATCGGTGGTGACAAGAAGAAGGGCAACTAAACG
EST: gi|34990343|gb|CF564260.1|CF564260
EST:     TGCGCATGCAGTGCCAAGAGTGCAAGCAGACCTGCATGAAGGGCCTGAAG                         CGCTGCAAGCACTTCGAGATCGGTGGTGACAAGAAGAAGGGCAACTAAACG
genomic: TGCGCATGCAGTGCCAAGAGTGCAAGCAGACCTGCATGAAGGGCCTGAAGgtgggtgggg ... ttccccacagCGCTGCAAGCACTTCGAGATCGGTGGTGACAAGAAGAAGGGCAACTAAACG
EST: gi|10788173|gb|AV644845.1|AV644845
EST:     TGCGCATGCAGTGCCAAGAGTGCAAGCAGACCTGCATGAAGGGCCTGAAG                         CGCTGCAAGCACTTCGAGATCGGTGGTGACAAGAAGAAGGGCAACTAAACG
genomic: TGCGCATGCAGTGCCAAGAGTGCAAGCAGACCTGCATGAAGGGCCTGAAGgtgggtgggg ... ttccccacagCGCTGCAAGCACTTCGAGATCGGTGGTGACAAGAAGAAGGGCAACTAAACG
EST: gi|6550594|gb|AV396378.1|AV396378
EST:     TGCGCATGCAGTGCCAAGAGTGCAAGCAGACCTGCATGAAGGGCCTGAAG                         CGCTGCAAGCACTTCGAGATCGGTGGTGACAAGAAGAAGGGCAACTAAACG
genomic: TGCGCATGCAGTGCCAAGAGTGCAAGCAGACCTGCATGAAGGGCCTGAAGgtgggtgggg ... ttccccacagCGCTGCAAGCACTTCGAGATCGGTGGTGACAAGAAGAAGGGCAACTAAACG
EST: gi|10784804|gb|AV641476.1|AV641476
EST:     TGCGCATGCAGTGCCAAGAGTGCAAGCAGACCTGCATGAAGGGCCTGAAG                         CGCTGCAAGCACTTCGAGATCGGTGGTGACAAGAAGAAGGGCAACTAAACG
genomic: TGCGCATGCAGTGCCAAGAGTGCAAGCAGACCTGCATGAAGGGCCTGAAGgtgggtgggg ... ttccccacagCGCTGCAAGCACTTCGAGATCGGTGGTGACAAGAAGAAGGGCAACTAAACG
EST: gi|34994842|gb|CF568759.1|CF568759
EST:     TGCGCATGCAGTGCCAAGAGTGCAAGCAGACCTGCATGAAGGGCCTGAAG                         CGCTGCAAGCACTTCGAGATCGGTGGTGACAAGAAGAAGGGCAACTAAACG
genomic: TGCGCATGCAGTGCCAAGAGTGCAAGCAGACCTGCATGAAGGGCCTGAAGgtgggtgggg ... ttccccacagCGCTGCAAGCACTTCGAGATCGGTGGTGACAAGAAGAAGGGCAACTAAACG
EST: gi|34988338|gb|CF562255.1|CF562255
EST:     TGCGCATGCAGTGCCAAGAGTGCAAGCAGACCTGCATGAAGGGCCTGAAG                         CGCTGCAAGCACTTCGAGATCGGTGGTGACAAGAAGAAGGGCAACTAAACG
genomic: TGCGCATGCAGTGCCAAGAGTGCAAGCAGACCTGCATGAAGGGCCTGAAGgtgggtgggg ... ttccccacagCGCTGCAAGCACTTCGAGATCGGTGGTGACAAGAAGAAGGGCAACTAAACG
EST: gi|22074012|gb|BQ823256.1|BQ823256
EST:     TGCGCATGCAGTGCCAAGAGTGCAAGCAGACCTGCATGAAGGGCCTGAAG                         CGCTGCAAGCACTTCGAGATCGGTGGTGACAAGAAGAAGGGCAACTAAACG
genomic: TGCGCATGCAGTGCCAAGAGTGCAAGCAGACCTGCATGAAGGGCCTGAAGgtgggtgggg ... ttccccacagCGCTGCAAGCACTTCGAGATCGGTGGTGACAAGAAGAAGGGCAACTAAACG
EST: gi|34981145|gb|CF555062.1|CF555062
EST:     TGCGCATGCAGTGCCAAGAGTGCAAGCAGACCTGCATGAAGGGCCTGAAG                         CGCTGCAAGCACTTCGAGATCGGTGGTGACAAGAAGAAGGGCAACTAAACG
genomic: TGCGCATGCAGTGCCAAGAGTGCAAGCAGACCTGCATGAAGGGCCTGAAGgtgggtgggg ... ttccccacagCGCTGCAAGCACTTCGAGATCGGTGGTGACAAGAAGAAGGGCAACTAAACG
EST: gi|34989175|gb|CF563092.1|CF563092
EST:     TGCGCATGCAGTGCCAAGAGTGCAAGCAGACCTGCATGAAGGGCCTGAAG                         CGCTGCAAGCACTTCGAGATCGGTGGTGACAAGAAGAAGGGCAACTAAACG
genomic: TGCGCATGCAGTGCCAAGAGTGCAAGCAGACCTGCATGAAGGGCCTGAAGgtgggtgggg ... ttccccacagCGCTGCAAGCACTTCGAGATCGGTGGTGACAAGAAGAAGGGCAACTAAACG
EST: gi|34988337|gb|CF562254.1|CF562254
EST:     TGCGCATGCAGTGCCAAGAGTGCAAGCAGACCTGCATGAAGGGCCTGAAG                         CGCTGCAAGCTCTTCGAGATCGGTGGTGACAAGAAGAAGGGCAACTAAACG
genomic: TGCGCATGCAGTGCCAAGAGTGCAAGCAGACCTGCATGAAGGGCCTGAAGgtgggtgggg ... ttccccacagCGCTGCAAGCACTTCGAGATCGGTGGTGACAAGAAGAAGGGCAACTAAACG
EST: gi|34982457|gb|CF556374.1|CF556374
EST:     TGCGCATGCAGTGCCAAGAGTGCAAGCAGACCTGCATGAAGGGCCTGAAG                         CGCTGCAAGCACTTCGAGATCGGTGGTGACAAGAAGAAGGGCAACTAAACG
genomic: TGCGCATGCAGTGCCAAGAGTGCAAGCAGACCTGCATGAAGGGCCTGAAGgtgggtgggg ... ttccccacagCGCTGCAAGCACTTCGAGATCGGTGGTGACAAGAAGAAGGGCAACTAAACG
EST: gi|10789531|gb|AV645260.1|AV645260
EST:     TGCGCATGCAGTGCCAAGAGTGCAAGCAGACCTGCATGAAGGGCCTGAAG                         CGCTGCAAGCACTTCGAGATCGGTGGCGACAAGAAGAAGGGCAACTAAACG
genomic: TGCGCATGCAGTGCCAAGAGTGCAAGCAGACCTGCATGAAGGGCCTGAAGgtgggtgggg ... ttccccacagCGCTGCAAGCACTTCGAGATCGGTGGTGACAAGAAGAAGGGCAACTAAACG
EST: gi|34991411|gb|CF565328.1|CF565328
EST:     TGCGCATGCAGTGCCAAGAGTGCAAGCAGACCTGCATGAAGGGCCTGAAG                         CGCTGCAAGCACTTCGAGATCGGTGGTGACAAGAAGAAGGGCAACTAAACG
genomic: TGCGCATGCAGTGCCAAGAGTGCAAGCAGACCTGCATGAAGGGCCTGAAGgtgggtgggg ... ttccccacagCGCTGCAAGCACTTCGAGATCGGTGGTGACAAGAAGAAGGGCAACTAAACG
EST: gi|7545738|gb|AW676226.1|AW676226
EST:     TGCGCATGCAGTGCCAAGAGTGCAAGCAGACCTGCATGAAGGGCCTGAAG                         CGCTGCAAGCACTTCGAGATCGGTGGTGACAAGAAGAAGGGCAACTAAACG
genomic: TGCGCATGCAGTGCCAAGAGTGCAAGCAGACCTGCATGAAGGGCCTGAAGgtgggtgggg ... ttccccacagCGCTGCAAGCACTTCGAGATCGGTGGTGACAAGAAGAAGGGCAACTAAACG
EST: gi|34991412|gb|CF565329.1|CF565329
EST:     TGCGCATGCAGTGCCAAGAGTGCAAGCAGACCTGCATGAAGGGCCTGAAG                         CGCTGCAAGCACTTCGAGATCGGTGGTGACAAGAAGAAGGGCAACTAAACG
genomic: TGCGCATGCAGTGCCAAGAGTGCAAGCAGACCTGCATGAAGGGCCTGAAGgtgggtgggg ... ttccccacagCGCTGCAAGCACTTCGAGATCGGTGGTGACAAGAAGAAGGGCAACTAAACG
EST: gi|7545739|gb|AW676227.1|AW676227
EST:     TGCGCATGCAGTGCCAAGAGTGCAAGCAGACCTGCATGAAGGGCCTGAAG                         CGCTGCAAGCACTTCGAGATCGGTGGTGACAAGAAGAAGGGCAACTAAACG
genomic: TGCGCATGCAGTGCCAAGAGTGCAAGCAGACCTGCATGAAGGGCCTGAAGgtgggtgggg ... ttccccacagCGCTGCAAGCACTTCGAGATCGGTGGTGACAAGAAGAAGGGCAACTAAACG
EST: gi|34984533|gb|CF558450.1|CF558450
EST:     TGCGCATGCAGTGCCAAGAGTGCAAGCAGACCTGCATGAAGGGCCTGAAG                         CGCTGCAAGCACTTCGAGATCGGTGGTGACAAGAAGAAGGGCAACTAAACG
genomic: TGCGCATGCAGTGCCAAGAGTGCAAGCAGACCTGCATGAAGGGCCTGAAGgtgggtgggg ... ttccccacagCGCTGCAAGCACTTCGAGATCGGTGGTGACAAGAAGAAGGGCAACTAAACG
EST: gi|34981094|gb|CF555011.1|CF555011
EST:     TGCGCATGCAGTGCCAAGAGTGCAAGCAGACCTGCATGAAGGGCCTGAAG                         CGCTGCAAGCACTTCGAGATCGGTGGTGACAAGAAGAAGGGCAACTAAACG
genomic: TGCGCATGCAGTGCCAAGAGTGCAAGCAGACCTGCATGAAGGGCCTGAAGgtgggtgggg ... ttccccacagCGCTGCAAGCACTTCGAGATCGGTGGTGACAAGAAGAAGGGCAACTAAACG
EST: gi|10789373|gb|AV645102.1|AV645102
EST:     TGCGCATGCAGTGCCAAGAGTGCAAGCAGACCTGCATGAAGGGCCTGAAG                         CGCTGCAAGCACTTCGAGATCGGTGGTGACAAGAAGAAGGGCAACTAAACG
genomic: TGCGCATGCAGTGCCAAGAGTGCAAGCAGACCTGCATGAAGGGCCTGAAGgtgggtgggg ... ttccccacagCGCTGCAAGCACTTCGAGATCGGTGGTGACAAGAAGAAGGGCAACTAAACG
EST: gi|22075594|gb|BQ824370.1|BQ824370
EST:     TGCGCATGCAGTGCCAAGAGTGCAAGCAGACCTGCATGAAGGGCCTGAAG                         CGCTGCAAGCACTTCGAGATCGGTGGTGACAAGAAGAAGGGCAACTAAACG
genomic: TGCGCATGCAGTGCCAAGAGTGCAAGCAGACCTGCATGAAGGGCCTGAAGgtgggtgggg ... ttccccacagCGCTGCAAGCACTTCGAGATCGGTGGTGACAAGAAGAAGGGCAACTAAACG
EST: gi|34987789|gb|CF561706.1|CF561706
EST:     TGCGCATGCAGTGCCAAGAGTGCAAGCAGACCTGCATGAAGGGCCTGAAG                         CGCTGCAAGCACTTCGAGATCGGTGGTGACAAGAAGAAGGGCAACTAAACG
genomic: TGCGCATGCAGTGCCAAGAGTGCAAGCAGACCTGCATGAAGGGCCTGAAGgtgggtgggg ... ttccccacagCGCTGCAAGCACTTCGAGATCGGTGGTGACAAGAAGAAGGGCAACTAAACG
EST: gi|7546171|gb|AW676659.1|AW676659
EST:     TGCGCATGCAGTGCCAAGAGTGCAAGCAGACCTGCATGAAGGGCCTGAAG                         CGCTGCAAGCACTTCGAGATCGGTGGTGACAAGAAGAAGGGCAACTAAACG
genomic: TGCGCATGCAGTGCCAAGAGTGCAAGCAGACCTGCATGAAGGGCCTGAAGgtgggtgggg ... ttccccacagCGCTGCAAGCACTTCGAGATCGGTGGTGACAAGAAGAAGGGCAACTAAACG
EST: gi|22055213|gb|BQ811715.1|BQ811715
EST:     TGCGCATGCAGTGCCAAGAGTGCAAGCAGACCTGCATGAAGGGCCTGAAG                         CGCTNGCA-GCACTTCGAGATCGGT
genomic: TGCGCATGCAGTGCCAAGAGTGCAAGCAGACCTGCATGAAGGGCCTGAAGgtgggtgggg ... ttccccacagCGCT-GCAAGCACTTCGAGATCGGT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCCAAGACCACCAAGAAGATCGTGCTGCGCATGCAGTGCCAAGAGTGCAAGCAGACCTGCATGAAGGGCCTGAAGgtgggtggggcgccagatgtggggcactgatacgcttgcgggctgtgttgtggcacggatcaacagtaaaccggacgaagcattgtggctggggtggggaagcgacagtacaagccagcaacttgtgcccgtgcatgcgccagtggcctctgacgccgttcgctccgctccaacgctcgcccgttcttccccacag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGAAG