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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaggtcgcacaggaaactgggctcggtcgcgaggtctgaagatcattgggaagtcgctggatgcgggagcttagataagatatgatgtgacagggtgaacgggacttcatgtatggagcgcgtgtgctagccgctacccaggccgctaaccatggaacaccgcgaccctcgttttttgcagGCCAAGACGAAGGCCATGTCGTACACGAACTACTTCGCGGACGCGCTGACGGCGGAGGCGGAGCGCGACAGCCGCATCGTGGCGGTGCACGCGGCCATGG

Basic information

species Chlamydomonas reinhardtii
transcript EDO97255
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: EDO97255 (Chlamydomonas reinhardtii), 3'ss of exon 5
lower sequence: LOC_Os05g33840.1 (Oryza sativa), 3'ss of exon 5
gtaggtcgcacaggaaactgggctcggtcgcgaggtctgaagatcattgggaagtcgctggatgcgggagcttagataagatatgatgtgacagggtgaacgggacttcatgtatggagcgcgtgtgctagccgctacccaggccgctaaccatggaacaccgcgaccctcgttttttgcagGCCAA-GACGAAGGCCATGTCGTACACGAACTACTTCGCGGACGCGCTGACGGCGGAGGCGGAGCGCGACAGCCGCATCGTGGCGGTGCACGCGGCCATGG
             ||| |     ||| ||| ||  ||    | |  |||   |   | | ||  |   | | |   | |||      | |   |  ||| || |  ||  ||| |         ||| | |  | | |    |  || ||    |  |  | |||||          | || | |   | ||||| |  ||||||||||||||||||||||||| ||||| |  || |||||                                         
---------gtgagaatcccaaatcg-tcgtgacctcctgcgtttcttgttgaaatgtttgaatc---atcatgcgtgagaccaaccgcgggcgattgatcgag-tttggtgtgt----tcttggtgatcgatgatgcagGCGTGGCGAAGTTCG--ATCCGGCGACGGGGAAGCAGTTCAAGTCGCCGGCGAAGACGCTGTCGTACACGAACTACTTCGCGGAGGCGCTCATCGCCGAGGC-----------------------------------------
















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|161820638|gb|FC106138.1|FC106138
EST:     AGATGCACGGTGTGGTCAAGTTCGACCCCCGCACCGGCAAGCAGGTGCAG                         GCCAAGACGAAGGCCATGTCGTACACGAACTACTTCGCGGACGCGCTGACG
genomic: AGATGCACGGTGTGGTCAAGTTCGACCCCCGCACCGGCAAGCAGGTGCAGgtaggtcgca ... ttttttgcagGCCAAGACGAAGGCCATGTCGTACACGAACTACTTCGCGGACGCGCTGACG
EST: gi|7687465|gb|AW758111.1|AW758111
EST:     AGATGCACGGTGTGGTCAAGTTCGACCCCCGCACCGGCAAGCAGGTGCAG                         GCCAAGACGAAGGCCATGTCGTACACGAACTACTTCGCGGACGCGCTGACG
genomic: AGATGCACGGTGTGGTCAAGTTCGACCCCCGCACCGGCAAGCAGGTGCAGgtaggtcgca ... ttttttgcagGCCAAGACGAAGGCCATGTCGTACACGAACTACTTCGCGGACGCGCTGACG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctagccgctacccaggccgctaaccatggaacaccgcgaccctcgttttttgcagGCCAAGACGAAGGCCATGTCGTACACGAACTACTTCGCGGACGCGCTGACGGCGGAGGCGGAGCGCGACAGCCGCATCGTGGCGGTGCACGCGGCCATGG
                 cgctaac  putative branch site (score: 2)
                                       ccctcgttttttgc  putative PPT
                                             tttttt  TA-rich tract