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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCTATTCCTACTGTCCATTGACGAGGGCATCACCGGGTATCGGGATGACTCGCTGGAGACGGTCAAGCGCAACGAGCAGCAGTACGGCATTCCGCTCAAGgtgagtgagggcacggaccttgcggtgccggagaaatttcttgggccagcggaaggtgctgaactcgcaacagctgttgcgtgcgggctcgcgtgtggtgtatattgttccagtaaacccatgcagcatttgcagtactcgaatgctggttgagttggtcaagctcactcagctcttgacatgcag

Basic information

species Chlamydomonas reinhardtii
transcript EDO97463
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: EDO97463 (Chlamydomonas reinhardtii), 5'ss of exon 3
lower sequence: EFJ30001 (Selaginella moellendorffii), 5'ss of exon 3
------------------CCTATTCCTACTGTCCATTGACGAGGGCATCACCGGGTATCGGGATGACTCGCTGGAGACGGTCAAGCGCAACGAGCAGCAGTACGGCATTCCGCTCAAGgtgagtgagggcacggaccttgcggtgccggagaaatttcttgggccagcggaaggtgctgaa-ctcgcaacagctgttgcgtgcgggctcgcgtgtggtgtatattgttccagtaaacccatgcagcatttgcagtactcgaatgctggttgagttggtcaagctcactcagctcttgacatgcag
                   || ||| |  ||||||| |||||||| ||  |||| |||||||||||||| || ||||| |||||||| |||||    |||    |  || | | || |   | |            |||||| |       || ||||||  |           ||||    || |||                                                                                                                     
GCACGACTATGGACTGGATCTCTTCTTGTTGTCCATCGACGAGGGAATTTCCGGCTATCGGGATGACTCCCTCGAGACTGTCAAGCGAAACGAAGTCCAG-

upper sequence: EDO97463 (Chlamydomonas reinhardtii), 5'ss of exon 3
lower sequence: EFJ25043 (Selaginella moellendorffii), 5'ss of exon 3
------------------CCTATTCCTACTGTCCATTGACGAGGGCATCACCGGGTATCGGGATGACTCGCTGGAGACGGTCAAGCGCAACGAGCAGCAGTACGGCATTCCGCTCAAGgtgagtgagggcacggaccttgcggtgccggagaaatttcttgggccagcggaaggtgctgaa-ctcgcaacagctgttgcgtgcgggctcgcgtgtggtgtatattgttccagtaaacccatgcagcatttgcagtactcgaatgctggttgagttggtcaagctcactcagctcttgacatgcag
                   || ||| |  ||||||| |||||||| ||  ||||||||||||||||||| || ||||| |||||||| |||||    |||    |  || | | || |   | |            |||||| |       || ||||||  |           ||||    || |||                                                                                                                     
GCACGACTATGGACTGGATCTCTTCTTGTTGTCCATCGACGAGGGAATTTCCGGGTATCGGGATGACTCCCTCGAGACTGTCAAGCGAAACGAAGTCCAG-
















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|15701197|gb|BI725502.1|BI725502
EST:     CGCTGGAGACGGTCAAGCGCAACGAGCAGCAGTACGGCATTCCGCTCAAG                         GTGGTGTCGTACAAGGAGC
genomic: CGCTGGAGACGGTCAAGCGCAACGAGCAGCAGTACGGCATTCCGCTCAAGgtgagtgagg ... tgacatgcagGTGGTGTCGTACAAGGAGC
EST: gi|161805161|gb|FC089242.1|FC089242
EST:     CGCTGGAGACGGTCAAGCGCAACGAGCAGCAGTACGGCATTCCGCTCAAG                         GTGGTGTCGTACAAGGAGCTTTACGGCTGGACTATGGACGAGATTGTGTCG
genomic: CGCTGGAGACGGTCAAGCGCAACGAGCAGCAGTACGGCATTCCGCTCAAGgtgagtgagg ... tgacatgcagGTGGTGTCGTACAAGGAGCTTTACGGCTGGACTATGGACGAGATTGTGTCG
EST: gi|15699525|gb|BI723830.1|BI723830
EST:     CGCTGGAGACGGTCAAGCGCAACGAGCAGCAGTACGGCATTCCGCTCAAG                         GTGGTGTCGTACAAGGAGCTTTACGGCTGGACTATGGACGAGATTGTGTCG
genomic: CGCTGGAGACGGTCAAGCGCAACGAGCAGCAGTACGGCATTCCGCTCAAGgtgagtgagg ... tgacatgcagGTGGTGTCGTACAAGGAGCTTTACGGCTGGACTATGGACGAGATTGTGTCG
EST: gi|16072208|gb|BI874204.1|BI874204
EST:     CGCTGGAGACGGTCAAGCGCAACGAGCAGCAGTACGGCATTCCGCTCAAG                         GTGGTGTCGTACAAGGAGCTTTACGGCTGGACTATGGACGAGATTGTGTCG
genomic: CGCTGGAGACGGTCAAGCGCAACGAGCAGCAGTACGGCATTCCGCTCAAGgtgagtgagg ... tgacatgcagGTGGTGTCGTACAAGGAGCTTTACGGCTGGACTATGGACGAGATTGTGTCG
EST: gi|15699523|gb|BI723828.1|BI723828
EST:     CGCTGGAGACGGTCAAGCGCAACGAGCAGCAGTACGGCATTCCGCTCAAG                         GTGGTGTCGTACAAGGAGCTTTACGGCTGGACTATGGACGAGATTGTGTCG
genomic: CGCTGGAGACGGTCAAGCGCAACGAGCAGCAGTACGGCATTCCGCTCAAGgtgagtgagg ... tgacatgcagGTGGTGTCGTACAAGGAGCTTTACGGCTGGACTATGGACGAGATTGTGTCG
EST: gi|15699524|gb|BI723829.1|BI723829
EST:     CGCTGGAGACGGTCAAGCGCAACGAGCAGCAGTACGGCATTCCGCTCAAG                         GTGGTGTCGTACAAGGAGCTTTACGGCTGGACTATGGACGAGATTGTGTCG
genomic: CGCTGGAGACGGTCAAGCGCAACGAGCAGCAGTACGGCATTCCGCTCAAGgtgagtgagg ... tgacatgcagGTGGTGTCGTACAAGGAGCTTTACGGCTGGACTATGGACGAGATTGTGTCG
EST: gi|14239268|gb|BG858084.1|BG858084
EST:     CGCTGGAGACGGTCAAGCGCAACGAGCAGCAGTACGGCATTCCGCTCAAG                         GTGGTGTCGTACAAGGAGCTTTACGGCTGGACTATGGACGAGATTGTGTCG
genomic: CGCTGGAGACGGTCAAGCGCAACGAGCAGCAGTACGGCATTCCGCTCAAGgtgagtgagg ... tgacatgcagGTGGTGTCGTACAAGGAGCTTTACGGCTGGACTATGGACGAGATTGTGTCG
EST: gi|14229546|gb|BG848362.1|BG848362
EST:     CGCTGGAGACGGTCAAGCGCAACGAGCAGCAGTACGGCATTCCGCTCAAG                         GTGGTGTCGTACAAGGAGCTTTACGGCTGGACTATGGACGAGATTGTGTCG
genomic: CGCTGGAGACGGTCAAGCGCAACGAGCAGCAGTACGGCATTCCGCTCAAGgtgagtgagg ... tgacatgcagGTGGTGTCGTACAAGGAGCTTTACGGCTGGACTATGGACGAGATTGTGTCG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CCTATTCCTACTGTCCATTGACGAGGGCATCACCGGGTATCGGGATGACTCGCTGGAGACGGTCAAGCGCAACGAGCAGCAGTACGGCATTCCGCTCAAGgtgagtgagggcacggaccttgcggtgccggagaaatttcttgggccagcggaaggtgctgaactcgcaacagctgttgcgtgcgggctcgcgtgtggtgtatattgttccagtaaacccatgcagcatttgcagtactcgaatgctggttgagttggtcaagctcactcagctcttgacatgcag

- - - - - - - - - - - - - - - - - - - - - - - - -  GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGCAG