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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATTCTGTGACTTGATGTGGAGTGATCCTGAGGATATCGAAACTTGGGCTGTTAGCCCACGAGGTGCTGGGTGGCTTTTTGGTGCACGCGTTACCTCTGAGgcatgctctctaaacgtgaacttaattctgcctccagggaggagtagttatgagttggaatttcttggctttccgttgcactttgagtgctctatttaag...

Basic information

species Physcomitrella patens
transcript PP1S207_36V6.1
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S207_36V6.1 (Physcomitrella patens), 5'ss of exon 7
lower sequence: LOC_Os01g49690.1 (Oryza sativa), 5'ss of exon 7
ATTCTGTGACTTGATGTGGAGTGATCCTGAGGATATCGAAACTTGGGCTGTTAGCCCACGAGGTGCTGGGTGGCTTTTTGGTGCACGCGTTACCTCTGAGgcatgc----tctctaaacgtgaacttaattctgcctccagggag---gagtagttatga-gttggaatttcttggctttccgttgcactttgagtgctct--atttaag--------
 ||||||||  | ||||||||||| ||||| || || || || |||||||||||||| || || ||||| |||||||||||  |||| || ||  |||||| |||     ||  |  | |    |||| |      | ||| |||   |   ||| |  |  ||     |  |    |    ||| |  | | | || | |  || ||          
TTTCTGTGATCTAATGTGGAGTGACCCTGAAGAAATAGAGACATGGGCTGTTAGCCCTCGTGGAGCTGGTTGGCTTTTTGGATCACGAGTGACAGCTGAGgtatgtacagtcatttgatgatttcttactctatttttcagagagtgtgtacagtcactacattctggatcatctattaattgtttccttgtaaatgtttttcatctaccttttgcag

upper sequence: PP1S207_36V6.1 (Physcomitrella patens), 5'ss of exon 7
lower sequence: GLYMA0048S00290.2 (Glycine max), 5'ss of exon 7
ATTCTGTGACTTGATGTGGAGTGATCCTGAGGATATCGAAACTTGGGCTGTTAGCCCACGAGGTGCTGGGTGGCTTTTTGGTGCACGCGTTACCTCTGAGgcatgctctctaaacgtgaacttaattctgcctccagggaggagtagttatgagttggaatttcttggctttccgttgcactttgagtgctctatttaag
||| |||||  ||||||||||||||||||| ||||||||||| ||||| || || || || || ||||| |||||||||||  | || || || ||||||| |      | ||  ||||| |   |  ||  |  ||    ||  | ||||| ||  ||||||      |  |   |   | |  ||             
ATTTTGTGATCTGATGTGGAGTGATCCTGAAGATATCGAAACATGGGCAGTCAGTCCTCGTGGAGCTGGTTGGCTTTTTGGATCCCGGGTCACTTCTGAGgtaa---tgccaattgtgaattgcttattgaattgagtattgaaca-ttatgtgt--gaattttacaaatgccttgttttcatgcag-------------

upper sequence: PP1S207_36V6.1 (Physcomitrella patens), 5'ss of exon 7
lower sequence: GLYMA10G43480.1 (Glycine max), 5'ss of exon 7
ATTCTGTGACTTGATGTGGAGTGATCCTGAGGATATCGAAACTTGGGCTGTTAGCCCACGAGGTGCTGGGTGGCTTTTTGGTGCACGCGTTACCTCTGAGgca-tgctctctaaacgtgaacttaattctgcctccagggaggagtagttatgagttggaatttcttggctttccgttgcactttgagtgctctatttaag
 ||||||||  | ||||||||||||||||| ||||| ||||| ||||| || || || ||||| || || |||||||||||  |  | || || || |||| | ||   | ||   || || |       || |  ||    || ||  | | | |   |   |       ||    | ||                    
TTTCTGTGATCTTATGTGGAGTGATCCTGAAGATATTGAAACATGGGCAGTCAGTCCCCGAGGAGCAGGTTGGCTTTTTGGATCCAGGGTCACTTCGGAGgtaatgtaatttatttgttaatt-------gcttttagaattgaatatgttttaatcttaccattgcattcttttcatacag-------------------

upper sequence: PP1S207_36V6.1 (Physcomitrella patens), 5'ss of exon 7
lower sequence: AT1G50370.1 (Arabidopsis thaliana), 5'ss of exon 7
ATTCTGTGACTTGATGTGGAGTGATCCTGAGGATATCGAAACTTGGGCTGTTAGCCCACGAGGTGCTGGGTGGCTTTTTGGTGCACGCGTTACCTCTGAGgca-------tgctctctaaacgtgaacttaattctgcctccagggaggagtagttatgagttggaatttcttggctttccgttgcactttgagtgctctatttaag
 ||||||||  | ||||||||||||||||| ||||| ||||| |||||||| || ||||| || ||||| |||||||| ||  |  | |||||| |||||| |       |  | |||     |||| ||         |      || | ||   |||  ||  | || | ||   |   |||   |||   ||||          
CTTCTGTGATCTTATGTGGAGTGATCCTGAAGATATTGAAACATGGGCTGTCAGTCCACGTGGAGCTGGTTGGCTTTTCGGGTCCAGGGTTACCACTGAGgtatttatatttttttctggggttgaaatttgaataaggtgtgaaaagaaataa--atgtatttcagttccctgatctgtggttttgcttcttgtgcag--------

upper sequence: PP1S207_36V6.1 (Physcomitrella patens), 5'ss of exon 7
lower sequence: AT3G19980.1 (Arabidopsis thaliana), 5'ss of exon 7
ATTCTGTGACTTGATGTGGAGTGATCCTGAGGATATCGAAACTTGGGCTGTTAGCCCACGAGGTGCTGGGTGGCTTTTTGGTGCACGCGTTACCTCTGAGgcatgctctctaaacgtgaacttaattctgcctccagggaggagtagttatgagttggaatttcttggctttccgttgcactttgagtgctctatttaag
 || || ||  | ||||||||||||||||| ||||| ||||| ||||| ||||| ||||| || ||||| |||||||| ||  |  | |||||| |||||| ||| |  ||       ||  |     ||   |        || | |||  | ||   || |||   ||||   |    |||   ||||          
CTTTTGCGATCTTATGTGGAGTGATCCTGAAGATATTGAAACATGGGCGGTTAGTCCACGTGGAGCTGGTTGGCTTTTCGGATCCAGGGTTACCACTGAGgtatgtttactttctcaaaagcttgaattgatactgtaactaagaaatta--atttcacatctctgatctttggttctggcttcttgtgcag--------

upper sequence: PP1S207_36V6.1 (Physcomitrella patens), 5'ss of exon 7
lower sequence: EFJ05314 (Selaginella moellendorffii), 5'ss of exon 7
ATTCTGTGACTTGATGTGGAGTGATCCTGAGGATATCGAAACTTGGGCTGTTAGCCCACGAGGTGCTGGGTGGCTTTTTGGTGCACGCGTTACCTCTGAGgcatgctctctaaacgtgaacttaattctgcctccagggaggagtagttatgagttggaatttcttggctttccgttgcactttgagtgctctatttaag
||| |||||  | |||||||| ||||| ||||| || ||| | ||||  |||||||| || ||||| || ||||| ||||||||||| ||||| || |||||| |   |  ||||| |                | | ||        ||||  |  |    |||    |||||   |                      
ATTTTGTGATCTCATGTGGAGCGATCCGGAGGACATTGAAGCGTGGGGAGTTAGCCCCCGTGGTGCCGGATGGCTATTTGGTGCACGGGTTACTTCCGAGgcaagtgat--aaacgag----------------ctgagaaatccttatatgcttctgtccgtctcctttttccacag----------------------

upper sequence: PP1S207_36V6.1 (Physcomitrella patens), 5'ss of exon 7
lower sequence: EFJ25636 (Selaginella moellendorffii), 5'ss of exon 7
------------ATTCTGTGACTTGATGTGGAGTGATCCTGAGGATATCGAAACTTGGGCTGTTAGCCCACGAGGTGCTGGGTGGCTTTTTGGTGCACGCGTTACCTCTGAGgcatgctctctaaacgtgaacttaattctgcctccagggaggagtagttatgagttggaatttcttggctttccgttgcactttgagtgctctatttaag
            ||| |||||  | |||||||| ||||| ||||| || ||| | ||||  |||||||| || ||||| || ||||| ||||||||||| ||||| || |||||| |   |  |||||  | || |    | | |               ||||  |  |    |||    | |||   |                      
TCATGAAGGTCCATTTTGTGATCTCATGTGGAGCGATCCGGAGGACATTGAAGCGTGGGGAGTTAGCCCCCGTGGTGCCGGATGGCTATTTGGTGCACGGgttacttccgaggcaagtgat--aaacg--agctgagaattcctta--------------tatgcttctgtccgtctcctttctccacag----------------------

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|18338827|gb|BJ170852.1|BJ170852
EST:     TTAGCCCACGAGGTGCTGGGTGGCTTTTTGGTGCACGCGTTACCTCTGAG                         TTCAATCACATAAACGGATTGGAGCTTGTATGCCGTGCGCATCAATTAGTT
genomic: TTAGCCCACGAGGTGCTGGGTGGCTTTTTGGTGCACGCGTTACCTCTGAGgcatgctctc ... agtattgcagTTCAATCACATAAACGGATTGGAGCTTGTATGCCGTGCGCATCAATTAGTT
EST: gi|162174230|gb|FC350613.1|FC350613
EST:     TAGCCCACGAGGTGCTGGGTGGCTTTTTGGTGCACGCGTTACCTCTGAAG                         T-CAATCACATAAACGGATTGGAGCTTGTATGCCGTGCGCATCAATTAGT
genomic: TAGCCCACGAGGTGCTGGGTGGCTTTTTGGTGCACGCGTTACCTCTGA-Ggcatgctctc ... agtattgcagTTCAATCACATAAACGGATTGGAGCTTGTATGCCGTGCGCATCAATTAGT
EST: gi|100381804|gb|BY950182.1|BY950182
EST:     TTAGCCCACGAGGTGCTGGGTGGCTTTTTGGTGCACGCGTTACCTCTGAG                         TTTCA-TCACATAAACGGATTGAAGCTTGTATGCCGTGCGCATCA-TTNAG
genomic: TTAGCCCACGAGGTGCTGGGTGGCTTTTTGGTGCACGCGTTACCTCTGAGgcatgctctc ... agtattgcagTT-CAATCACATAAACGGATTGGAGCTTGTATGCCGTGCGCATCAATT-AG
EST: gi|208358797|gb|DC957625.1|DC957625
EST:     TTAGCCCACGAGGTGCTGGGTGGCTTTTTGGTGCACGCGTTACCTCTGAG                         TTCAATCACATAAACGGATTGGAGCTTGTATGCCGTGCGCATCAATTAGTT
genomic: TTAGCCCACGAGGTGCTGGGTGGCTTTTTGGTGCACGCGTTACCTCTGAGgcatgctctc ... agtattgcagTTCAATCACATAAACGGATTGGAGCTTGTATGCCGTGCGCATCAATTAGTT
EST: gi|208362791|gb|DC950591.1|DC950591
EST:     TTAGCCCACGAGGTGCTGGGTGGCTTTTTGGTGCACGCGTTACCTCTGAG                         TTCAATCACATAAACGGATTGGAGCTTGTATGCCGTGCGCATCAATTAGTT
genomic: TTAGCCCACGAGGTGCTGGGTGGCTTTTTGGTGCACGCGTTACCTCTGAGgcatgctctc ... agtattgcagTTCAATCACATAAACGGATTGGAGCTTGTATGCCGTGCGCATCAATTAGTT