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'   		11  
 5'  3'   		12  
 5'  3'   		13  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGCCGGTGAACGCGCCGCGCGCCCCCCACCACAACAACCACCACGAGGGCTTCATGAACTTCATGCACCGCGACGAGGAAATCAACTACTTCCCCAGCAGgtggggcgggatcaggcggtcggcggggtggggcaggtggtgcgactgtgtgaccgacattggcctgcaggctcccggctgatgtctgtgtgcgagctttcgcaagtctcggtatccgaccaagcgcccgcccacgcgatgcacag

Basic information

species Chlamydomonas reinhardtii
transcript EDP00871
intron # 11
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: EDP00871 (Chlamydomonas reinhardtii), 5'ss of exon 11
lower sequence: LOC_Os06g51150.1 (Oryza sativa), 5'ss of exon 4
--------------------TGCCGGTGAACGCGCCGCGCGCCCCCCACCACAACAACCACCACGAGGGCTTCATGAACTTCATGCACCGCGACGAGGAAATCAACTACTTCCCCAGCAGgtggggcggga-tcaggcggtcggc-ggggtggggcaggtgg-tgcgactgtgtgaccgacattggcctgcaggctcccggctgatgtctgtgtgcgagctttcgcaagtctcggtatccgaccaagcgcccgcccacgcgatgcacag
                    | || ||||| || ||        |  ||||||||||||||||||| |||| |||||| ||||||||| | || || ||  |    |   |    |      | |       ||  ||  || |  |  |||  |||  |   ||    |||       | ||||         || || |   |                                                                
TGGCCCAAACTATTTGATGCTTCCTGTGAATGCACCAAAATGTGCATACCACAACAACCACCACGATGGCTCCATGAATTTCATGCACAGGGATGAAGAGgtactgtgtgtatatactttcagagatacatctcctgcattcagttgttgtgatgcatctttctgtttttgtccattacatattgttt------cttccagtcaac---------------------------------------------------------------

upper sequence: EDP00871 (Chlamydomonas reinhardtii), 5'ss of exon 11
lower sequence: GRMZM2G088212_T02 (Zea mays), 5'ss of exon 3
--------------------TGCCGGTGAACGCGCCGCGCGCCCCCCACCACAACAACCACCACGAGGGCTTCATGAACTTCATGCACCGCGACGAGGAAATCAACTACTTCCCCAGCAGgtggggcgggatcaggcg-gtcggcggggtggggcaggtggtgcgactgtgtgaccgacattggcctgcaggctcccggctgatgtctgtgtgcgagctttcgcaagtctcggtatccgaccaagcgcccgcccacgcgatgcacag
                    | || ||||| || ||        |||||||||| |||||||| || || |||||||||||||||||| | ||||| ||  |  ||||  | |   | || |         |   ||  |   | | ||||  | | |        ||||     |   | |  | ||  ||    |  |||     | |       || ||      ||  |                                  
TGGTCCAAACTATCTGATGCTTCCTGTGAATGCACCAAAATGTGCCCACCACAATAACCACCATGATGGGTTCATGAACTTCATGCACAGGGACGAAGAGgt--actatgttctttggagttcttttccccttttgcatgcaagtgtggtgtaggatgcatcttacctgtc--gtcataagtaacatgtgggagttct-ctggcacttatacctatcctctctgtttccttag----------------------------------

upper sequence: EDP00871 (Chlamydomonas reinhardtii), 5'ss of exon 11
lower sequence: PP1S422_8V6.3 (Physcomitrella patens), 5'ss of exon 5
--------------------TGCCGGTGAACGCGCCGCGCGCCCCCCACCACAACAACCACCACGAGGGCTTCATGAACTTCATGCACCGCGACGAGGAAATCAA---CTACTTCCCCA-----GCAGgtggggcgggatcaggcggtcggc---ggggtggggcaggtggtgcgactgtgtgaccgacattggcctgca----ggctcccggctgatgtctgtgtgcgagctttcgcaagtctcggtatccgaccaagcgcccgcccacgcgatgcacag
                    | || || || || |||     | | || |||||||| ||||| || || ||||||||||||||||| || ||||||||  | ||   ||  ||  ||      | | ||         ||    | |   |    |  |   || | || |  |    |  ||    | |||   |        |    |  || |  |     | | | |  | |||    |||    | |||   | |        |   ||| | ||
GGGCCCTAACTATCTTATGTTACCCGTCAATGCTCCGAAGTGCGCTCATCACAACAATCACCATGAAGGATTCATGAACTTCATGCATCGTGACGAGGAGgtgaaagtctgattatccctctttgtatgttctaatatgtctaatgttttaccttagattctagcggttgctagggtactcagaagtgctttgatatatgtatcagtattcatctaaatttcaaatacta-cagttgca--cttcgaatgctgacgttgtgaatatgttca-aatgtatag

upper sequence: EDP00871 (Chlamydomonas reinhardtii), 5'ss of exon 11
lower sequence: EFJ36549 (Selaginella moellendorffii), 5'ss of exon 5
--------------------TGCCGGTGAACGCGCCGCGCGCCCCCCACCACAACAACCACCACGAGGGCTTCATGAACTTCATGCACCGCGACGAGGAAATCAACTACTTCCCCAGCAGgtggggcgggatcaggcggtcggcggggtggggcaggtggtgcgactgtgtgaccgacattggcctgcaggctcccggctgatgtctgtgtgcgagctttcgcaagtctcggtatccgaccaagcgcccgcccacgcgatgcacag
                    | || | |||||| ||        | || ||||||||||| |||||||| |||||||||||||  ||| | ||||| ||  |     |               |  |   |||  | | | |  |                                                                                                                         
GGGGCCGAATTACTTGCTGCTTCCTGCGAACGCTCCCAAGTGTGCTCATCACAACAACCATCACGAGGGATTCATGAACTTCACCCACAGGGACGAAGAGgtatgacaagcttttgcttatacgttctatatcctgtgtttgcag-------------------------------------------------------------------------------------------------------------------------

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|22054028|gb|BQ811113.1|BQ811113
EST:     TTCATGAACTTCATGCACCGCGACGAGGAAATCAACTACTTCCCCAGCAG                         GTTTGACCCGGTGCGCAACGCGGAGCGGGTGGCTTCCGTGTCGAGTGCGCC
genomic: TTCATGAACTTCATGCACCGCGACGAGGAAATCAACTACTTCCCCAGCAGgtggggcggg ... cgatgcacagGTTTGACCCGGTGCGCAACGCGGAGCGGGTGGCTGCCGTGTCGAGTGCGCC
EST: gi|22054029|gb|BQ811114.1|BQ811114
EST:     TTCATGAACTTCATGCACCGCGACGAGGAAATCAACTACTTCCCCAGCAG                         GTTTGACCCGGTGCGCAACGCGGAGCGGGTGGCTTCCGTGTCGAGTGCGCC
genomic: TTCATGAACTTCATGCACCGCGACGAGGAAATCAACTACTTCCCCAGCAGgtggggcggg ... cgatgcacagGTTTGACCCGGTGCGCAACGCGGAGCGGGTGGCTGCCGTGTCGAGTGCGCC
EST: gi|22076143|gb|BQ824919.1|BQ824919
EST:     TTCATGAACTTCATGCACCGCGACGAGGAAATCAACTACTTCCCCAGCAG                         GTTTGACCCGGTGCGCAACGCGGAGCGGGTGGCTGCCGTGTCGAGTGCGCC
genomic: TTCATGAACTTCATGCACCGCGACGAGGAAATCAACTACTTCCCCAGCAGgtggggcggg ... cgatgcacagGTTTGACCCGGTGCGCAACGCGGAGCGGGTGGCTGCCGTGTCGAGTGCGCC
EST: gi|15369143|gb|BI528569.1|BI528569
EST:     TTCATGAACTTCATGCACCGCGACGAGGAAATCAACTACTTCCCCAGCAG                         GTTTGACCCGGTGCGCAACGCGGAGCGGGTGGCTGCCGTGTCGAGTGCGCC
genomic: TTCATGAACTTCATGCACCGCGACGAGGAAATCAACTACTTCCCCAGCAGgtggggcggg ... cgatgcacagGTTTGACCCGGTGCGCAACGCGGAGCGGGTGGCTGCCGTGTCGAGTGCGCC
EST: gi|22076228|gb|BQ825004.1|BQ825004
EST:     TTCATGAACTTCATGCACCGCGACGAGGAAATCAACTACTTCCCCAGCAG                         GTTTGACCCGGTGCGCAACGCGGAGCGGGTGGCTGCCGTGTCGAGTGCGCC
genomic: TTCATGAACTTCATGCACCGCGACGAGGAAATCAACTACTTCCCCAGCAGgtggggcggg ... cgatgcacagGTTTGACCCGGTGCGCAACGCGGAGCGGGTGGCTGCCGTGTCGAGTGCGCC
EST: gi|6546842|gb|AV392626.1|AV392626
EST:     TTCATGAACTTCATGCACCGCGACGAGGAAATCAACTACTTCCCCAGCAG                         GTTTGACCCGG
genomic: TTCATGAACTTCATGCACCGCGACGAGGAAATCAACTACTTCCCCAGCAGgtggggcggg ... cgatgcacagGTTTGACCCGG
EST: gi|161817937|gb|FC103632.1|FC103632
EST:     TTTATGAACTTCATGCACCGCGACGAGGAAATCAACTACTTCCCCAGCAG                         GTTTGACCCGGTGCGCAACGCGGAGCGGGTGGCTGCCGTGTCGAGTGCGCC
genomic: TTCATGAACTTCATGCACCGCGACGAGGAAATCAACTACTTCCCCAGCAGgtggggcggg ... cgatgcacagGTTTGACCCGGTGCGCAACGCGGAGCGGGTGGCTGCCGTGTCGAGTGCGCC
EST: gi|15691957|gb|BI716262.1|BI716262
EST:     TTCATGAACTTCATGCACCGCGACGAGGAAATCAACTACTTCCCCAGCAG                         GTTTGACCCGGTGCGCAACGCGGAGCGGGTGGCTGCCGTGTCGAGTGCGCC
genomic: TTCATGAACTTCATGCACCGCGACGAGGAAATCAACTACTTCCCCAGCAGgtggggcggg ... cgatgcacagGTTTGACCCGGTGCGCAACGCGGAGCGGGTGGCTGCCGTGTCGAGTGCGCC
EST: gi|10127159|gb|BE725863.1|BE725863
EST:     TTCATGAACTTCATGCACCGCGACGAGGAAATCAACTACTTCCCCAGCAG                         GTTTGACCCGGTGCGCAACGCGGAGCGGGTGGCTGCCGTGTCGAGTGCGCC
genomic: TTCATGAACTTCATGCACCGCGACGAGGAAATCAACTACTTCCCCAGCAGgtggggcggg ... cgatgcacagGTTTGACCCGGTGCGCAACGCGGAGCGGGTGGCTGCCGTGTCGAGTGCGCC
EST: gi|22072693|gb|BQ822031.1|BQ822031
EST:     TTCATGAACTTCATGCACCGCGACGAGGAAATCAACTACTTCCCCAGCAG                         GTTTGACCCGGTGCGCAACGCGGAGCGGGTGGCTTCCGTGTCGAGTGCGCC
genomic: TTCATGAACTTCATGCACCGCGACGAGGAAATCAACTACTTCCCCAGCAGgtggggcggg ... cgatgcacagGTTTGACCCGGTGCGCAACGCGGAGCGGGTGGCTGCCGTGTCGAGTGCGCC
EST: gi|14230365|gb|BG849181.1|BG849181
EST:     TTCATGAACTTCATGCACCGCGACGAGGAAATCAACTACTTCCCCAGCAG                         GTTTGACCCGGTGCGCAACGCGGAGCGGGTGGCTGCCGTGTCGAGTGCGCC
genomic: TTCATGAACTTCATGCACCGCGACGAGGAAATCAACTACTTCCCCAGCAGgtggggcggg ... cgatgcacagGTTTGACCCGGTGCGCAACGCGGAGCGGGTGGCTGCCGTGTCGAGTGCGCC
EST: gi|22075187|gb|BQ823947.1|BQ823947
EST:     TTCATGAACTTCATGCACCGCGACGAGGAAATCAACTACTTCCCCAGCAG                         GTTTGACCCGGTGCGCAACGCGGAGCGGGTGGCTTCCGTGTCGAGTGCGCC
genomic: TTCATGAACTTCATGCACCGCGACGAGGAAATCAACTACTTCCCCAGCAGgtggggcggg ... cgatgcacagGTTTGACCCGGTGCGCAACGCGGAGCGGGTGGCTGCCGTGTCGAGTGCGCC
EST: gi|22055484|gb|BQ811846.1|BQ811846
EST:     TCATGCACCGCGACGAGGAAATCAACTACTTCCCCAGCAG                         GTTTGACCCGGTGCGCAACGCGGAGCGGGTGGCTGCCGTGTCGAGTGCGCC
genomic: TCATGCACCGCGACGAGGAAATCAACTACTTCCCCAGCAGgtggggcggg ... cgatgcacagGTTTGACCCGGTGCGCAACGCGGAGCGGGTGGCTGCCGTGTCGAGTGCGCC