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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CACCATCAAGCTGGGCTATGCCAACGCCAAGATCTACCAGTGCGGCAACGCCGCCTGCGAGCGGCCATCCTGCTACCGGGCCTACGGCTCGGCCAAGGAGgtgcgtgcggtacggcagagcgcggctgtggaacctggggcggctgcagctgtgggaggcgccggcaggggaaatgggcagctgggattctcgcgccctcgccgtatcctcccattcatctacccccgcacatacatccatccaaccggccatggcttgcag

Basic information

species Chlamydomonas reinhardtii
transcript EDP07730
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: EDP07730 (Chlamydomonas reinhardtii), 5'ss of exon 3
lower sequence: PP1S207_94V6.1 (Physcomitrella patens), 5'ss of exon 3
----------------------CACCATCAAGCTGGGCTATGCCAACGCCAAGATCTACCAGTGCGGCAACGCCGCCTGCGAGCGGCCATCCTGCTACCGGGCCTACGGCTCGGCCAAGGAG-
|||||| |||||||| |||||||||||||| |||||| |||| | | | ||| || || |||| | || | | | | | ||| |||| | | | |||| || || | || | | || | | ||||| | | | | | | | |||
AGAACGAGTTGGAGAGGAATATCACCATTAAGCTGGGTTATGCCAACGCCAAAATCTACAAGTGTGAAGATGAGCGCTGTCCTCGACCCATGAGCTATAAg---tatgatttgtacctgttctctatgcttgcgactttcgatctctcatctgtattttcttctcatgcgttgattttgttgtttactctc-ggttatggagatagctgatgtacgttgtgttttttgttgtag-------------------------------------------------------
















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|10783620|gb|AV640292.1|AV640292
EST:     CCGCCTGCGAGCGGCCATCCTGCTACCGGGCCTACGGCTCGGCCAAGGAG                         GACAACCCGCCCTGCGAGCTGTGCGGCGCTGCCATGGAGCTGGT
genomic: CCGCCTGCGAGCGGCCATCCTGCTACCGGGCCTACGGCTCGGCCAAGGAGgtgcgtgcgg ... tggcttgcagGACAACCCGCCCTGCGAGCTGTGCGGCGCTGCCATGGAGCTGGT
EST: gi|14229768|gb|BG848584.1|BG848584
EST:     CCGCCTGCGAGCGGCCATCCTGCTACCGGGCCTACGGCTCGGCCAAGGAG                         GACAACCCGCCCTGCGAGCTGTGCGGCGCTGCCATGGAGCTGGTCCGCCAC
genomic: CCGCCTGCGAGCGGCCATCCTGCTACCGGGCCTACGGCTCGGCCAAGGAGgtgcgtgcgg ... tggcttgcagGACAACCCGCCCTGCGAGCTGTGCGGCGCTGCCATGGAGCTGGTCCGCCAC
EST: gi|10786874|gb|AV643546.1|AV643546
EST:     CCGCCTGCGAGCGGCCATCCTGCTACCGGGCCTACGGCTCGGCCAAGGAG                         GACAACCCGCCCTGCGAGCTGTGCGGCGCTGCCA
genomic: CCGCCTGCGAGCGGCCATCCTGCTACCGGGCCTACGGCTCGGCCAAGGAGgtgcgtgcgg ... tggcttgcagGACAACCCGCCCTGCGAGCTGTGCGGCGCTGCCA
EST: gi|14229769|gb|BG848585.1|BG848585
EST:     CCGCCTGCGAGCGGCCATCCTGCTACCGGGCCTACGGCTCGGCCAAGGAG                         GACAACCCGCCCTGCGAGCTGTGCGGCGCTGCCATGGAGCTGGTCCGCCAC
genomic: CCGCCTGCGAGCGGCCATCCTGCTACCGGGCCTACGGCTCGGCCAAGGAGgtgcgtgcgg ... tggcttgcagGACAACCCGCCCTGCGAGCTGTGCGGCGCTGCCATGGAGCTGGTCCGCCAC
EST: gi|10780657|gb|AV637337.1|AV637337
EST:     CCGCCTGCGAGCGGCCATCCTGCTACCGGGCCTACGGCTCGGCCAAGGAG                         GACAACCCGCCCTGCGAGCTGTGCGGCGCTGCCATGGAGCTGGTCCGCCAC
genomic: CCGCCTGCGAGCGGCCATCCTGCTACCGGGCCTACGGCTCGGCCAAGGAGgtgcgtgcgg ... tggcttgcagGACAACCCGCCCTGCGAGCTGTGCGGCGCTGCCATGGAGCTGGTCCGCCAC
EST: gi|10793204|gb|AV630570.1|AV630570
EST:     CCGCCTGCGAGCGGCCATCCTGCTACCGGGCCTACGGCTCGGCCAAGGAG                         GACAACCCGCCCTGCGAGCTGTGCGGCGCTGCCATGGAGCTGGT
genomic: CCGCCTGCGAGCGGCCATCCTGCTACCGGGCCTACGGCTCGGCCAAGGAGgtgcgtgcgg ... tggcttgcagGACAACCCGCCCTGCGAGCTGTGCGGCGCTGCCATGGAGCTGGT
EST: gi|14238988|gb|BG857804.1|BG857804
EST:     CCGCCTGCGAGCGGCCATCCTGCTACCGGGCCTACGGCTCGGCCAAGGAG                         GACAACCCGCCCTGCGAGCTGTGCGGCGCTGCCATGGAGCTGGTCCGCCAC
genomic: CCGCCTGCGAGCGGCCATCCTGCTACCGGGCCTACGGCTCGGCCAAGGAGgtgcgtgcgg ... tggcttgcagGACAACCCGCCCTGCGAGCTGTGCGGCGCTGCCATGGAGCTGGTCCGCCAC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CACCATCAAGCTGGGCTATGCCAACGCCAAGATCTACCAGTGCGGCAACGCCGCCTGCGAGCGGCCATCCTGCTACCGGGCCTACGGCTCGGCCAAGGAGgtgcgtgcggtacggcagagcgcggctgtggaacctggggcggctgcagctgtgggaggcgccggcaggggaaatgggcagctgggattctcgcgccctcgccgtatcctcccattcatctacccccgcacatacatccatccaaccggccatggcttgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG