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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtcacgcttggggtcagggtctcaccctcgccgcacgacgcgcttctgggacgctctaaatctcctgcctacatgcctgacctgcagcttgccttcagcacttaactcccttttgtcctgaccccttgaaatgcagGTGCCATCCTGATTATCTCCTCTGCCGGACCCACCGAGAACGCCCTTTGGGCCATG

Basic information

species Chlamydomonas reinhardtii
transcript EDP04436
intron # 4
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|10785423|gb|AV642095.1|AV642095
EST:     CATCGGCCGCAAATGGGGCAGTGTCGCCACCGCCGGCACCATGGTCGTTG                         GTGCCATCCTGATTATCTCCTCTGGCCG-ACCCACCGAGAACG
genomic: CATCGGCCGCAAATGGGGCAGTGTCGCCACCGCCGGCACCATGGTCGTTGgtgagtcacg ... tgaaatgcagGTGCCATCCTGATTATCTCCTCTG-CCGGACCCACCGAGAACG
EST: gi|14227718|gb|BG846534.1|BG846534
EST:     CATCGGCCGCAAATGGGGCAGTGTCGCCACCGCCGGCACCATGGTCGTTG                         GTGCCATCCTGATTATCTCCTCTGCCGGACCCACCGAGAACGCCCTTTGGG
genomic: CATCGGCCGCAAATGGGGCAGTGTCGCCACCGCCGGCACCATGGTCGTTGgtgagtcacg ... tgaaatgcagGTGCCATCCTGATTATCTCCTCTGCCGGACCCACCGAGAACGCCCTTTGGG
EST: gi|15700841|gb|BI725146.1|BI725146
EST:     CATCGGCCGCAAATGGGGCAGTGTCGCCACCGCCGGCACCATGGTCGTTG                         GTGCCATCCTGATTATCTCCTCTGCCGGACCCACCGAGAACGCCCTTTGGG
genomic: CATCGGCCGCAAATGGGGCAGTGTCGCCACCGCCGGCACCATGGTCGTTGgtgagtcacg ... tgaaatgcagGTGCCATCCTGATTATCTCCTCTGCCGGACCCACCGAGAACGCCCTTTGGG
EST: gi|15700843|gb|BI725148.1|BI725148
EST:     CATCGGCCGCAAATGGGGCAGTGTCGCCACCGCCGGCACCATGGTCGTTG                         GTGCCATCCTGA
genomic: CATCGGCCGCAAATGGGGCAGTGTCGCCACCGCCGGCACCATGGTCGTTGgtgagtcacg ... tgaaatgcagGTGCCATCCTGA
EST: gi|10787575|gb|AV644247.1|AV644247
EST:     CATCGGCCGCAAATGGGGCAGTGTCGCCACCGCCGGCACCATGGTCGTTG                         GTGCCATCCTGATTATCTCCTCTGCC
genomic: CATCGGCCGCAAATGGGGCAGTGTCGCCACCGCCGGCACCATGGTCGTTGgtgagtcacg ... tgaaatgcagGTGCCATCCTGATTATCTCCTCTGCC
EST: gi|15700842|gb|BI725147.1|BI725147
EST:     CATCGGCCGCAAATGGGGCAGTGTCGCCACCGCCGGCACCATGGTCGTTG                         GTGCCATCCTG
genomic: CATCGGCCGCAAATGGGGCAGTGTCGCCACCGCCGGCACCATGGTCGTTGgtgagtcacg ... tgaaatgcagGTGCCATCCTG
EST: gi|10783422|gb|AV640094.1|AV640094
EST:     CATCGGCCGCAAATGGGGCAGTGTCGCCACCGCCGGCACCATGGTCGTTG                         GTGCCATCCTGATTATCTCCTCTGCCGGACCCACCGAGAACGCCCTTTG
genomic: CATCGGCCGCAAATGGGGCAGTGTCGCCACCGCCGGCACCATGGTCGTTGgtgagtcacg ... tgaaatgcagGTGCCATCCTGATTATCTCCTCTGCCGGACCCACCGAGAACGCCCTTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctgcagcttgccttcagcacttaactcccttttgtcctgaccccttgaaatgcagGTGCCATCCTGATTATCTCCTCTGCCGGACCCACCGAGAACGCCCTTTGGGCCATG
                                  tcctgac  putative branch site (score: 2)
                        ctcccttttgtcctga  CT-rich tract
                                            ttgaaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgagtcacgcttggggtcagggtctcaccctcgccgcacgacgcgcttctgggacgctctaaatctcctgcctacatgcctgacctgcagcttgccttcagcacttaactcccttttgtcctgaccccttgaaatgcagGTGCCATCCTGATTATCTCCTCTGCCGGACCCACCGAGAACGCCCTTTGGGCCATG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC