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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGCCAAAGCTGGGTATTATGACAAGCCAATTGCTACGCTGGATTTCGCATCGCTGTATCCCTCCATTATGATGGCCTACAACCTTTGTTACTGCACTTTGgtaaccttctgcatctagtcgtgttatgcaacttcgacatgcagttgtactgaggctctccgttgtttccatagccattgtcagacaatggcttctatga...

Basic information

species Physcomitrella patens
transcript PP1S14_182V6.1
intron # 15
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S14_182V6.1 (Physcomitrella patens), 5'ss of exon 15
lower sequence: GLYMA04G38800.1 (Glycine max), 5'ss of exon 15
TGCCAAAGCTGGGTATTATGACAAGCCAATTGCTACGCTGGATTTCGCATCGCTGTATCCCTCCATTATGATGGCCTACAACCTTTGTTACTGCACTTTGgtaaccttctgcatctagtcgtgttatgcaacttcgacatgcagttgtactgaggctctccg-----ttgtttccatagccattgtcagacaatggcttctatga------------------------------------------------------
 || |  ||||| | |||||| || |||||||||||  | ||||| |||||  ||||||| || |||||||||||||| ||| | ||||| |||||| ||||||   | | ||| |  |    |  |    | | ||  |  |||| |  |    || |        || |    |   |  |  |||    ||   ||| ||                                                        
GGCAAGGGCTGGATTTTATGAAAAACCAATTGCTACTTTAGATTTTGCATCCTTGTATCCATCTATTATGATGGCCTATAACTTATGTTATTGCACTCTGgtaaatattt-cattttttttattagtttttccttgagcttaagttttgttttttctttataaaaaattatgagtactactttattcatcagattagttcaattcgtatggagtaacaactggtagataattttgtttttgtttttactgtttgttaag

upper sequence: PP1S14_182V6.1 (Physcomitrella patens), 5'ss of exon 15
lower sequence: GLYMA06G16110.1 (Glycine max), 5'ss of exon 15
TGCCAAAGCTGGGTATTATGACAAGCCAATTGCTACGCTGGATTTCGCATCGCTGTATCCCTCCATTATGATGGCCTACAACCTTTGTTACTGCACTTTGgtaa------ccttctgcatctagtcgtg--ttatgcaacttcgacatgcagttgtactgag---gctctccgttgtttccatagccattgtcagacaatggcttctatga------------------------------------------------
 || |  ||||| | |||||| || |||||||||||  | ||||| |||||  ||||||| || |||||||||||||| ||  | ||||| |||||| ||||||      | || |   | ||||  |   ||| ||  ||  |   ||  |||    | |      |      |  | |  ||  |||      |       |  ||||                                                 
GGCAAGGGCTGGATTTTATGAAAAACCAATTGCTACTTTAGATTTTGCATCCTTGTATCCATCTATTATGATGGCCTATAATTTATGTTATTGCACTCTGgtaaatatttctttttttttttagtttttccttaagcttctgagttttgttgtttctttaaaaaaaattatgagtactactttattcatcagtttagttcaattcgtatgggggtaacaattggtacttttttttttttttgttttactgttctttaag

upper sequence: PP1S14_182V6.1 (Physcomitrella patens), 5'ss of exon 15
lower sequence: EDP09647 (Chlamydomonas reinhardtii), 5'ss of exon 15
TGCCAAAGCTGGGTATTATGACAAGCCAATTGCTACGCTGGATTTCGCATCGCTGTATCCCTCCATTATGATGGCCTACAACCTTTGTTACTGCACTTTGgtaaccttctgc-atctagt-cgtgttatgcaacttcgacatgcagttgtactg-aggctct----ccgttgtttccatagccat---tgtcagaca---atggcttctatga-------------------------------
                         ||  | || |||||||||||||| |||||||| || ||||| ||||||||  ||||||| || |||  |||  || | ||      | |   ||| | ||    ||     |||   |   || |  || |||  ||    | | || | |  ||| |      | |||||    ||  ||   |||                                
-----------------------GCCCGGTGGCGACGCTGGATTTCGCCTCGCTGTACCCGTCCATCATGATGGCGCACAACCTCTGCTACACCACCCTGCTCACGAAGGACCAgtgagtacctggcgggcgcgagcgaggggggattttgttgtaggtgctataactggtggtgcggtaggcgcaggcggcagacccgtataactcgaatgctggctgtccccatggcacactgctgcgacag

upper sequence: PP1S14_182V6.1 (Physcomitrella patens), 5'ss of exon 15
lower sequence: EFJ15982 (Selaginella moellendorffii), 5'ss of exon 14
TGCCAAAGCTGGGTATTATGACAAGCCAATTGCTACGCTGGATTTCGCATCGCTGTATCCCTCCATTATGATGGCCTACAACCTTTGTTACTGCACTTTGgtaaccttctgcatctagtcgtgttatgcaacttcgacatgca-gttgtactgaggctctccgttgtttccatagccattgtcagacaatggcttctatga
 || |  ||||| | ||| || ||||||||||| ||||| ||||| ||||| ||||| || || ||||||||||| ||||| ||||| || ||||| ||||||   | || |||    | ||||  |  |   | ||  | |  ||| || | ||                                              
AGCAAGGGCTGGATTTTACGAAAAGCCAATTGCCACGCTTGATTTTGCATCACTGTACCCATCAATTATGATGGCTTACAATCTTTGCTATTGCACCTTGgtactgtactccat---attgtgtatttgattgtggaattacttgttttattcag----------------------------------------------

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|162216016|gb|FC393473.1|FC393473
EST:     CGCTGTATCCCTCCATTATGATGGCCTACAACCTTTGTTACTGCACTTTG                         GTCAGGGCTGAGGATCAGCACTATCTGAGATTAGAACCAGAACAAGTGACT
genomic: CGCTGTATCCCTCCATTATGATGGCCTACAACCTTTGTTACTGCACTTTGgtaaccttct ... aactttccagGTCAGGGCTGAGGATCAGCACTATCTGAGATTAGAACCAGAACAAGTGACT