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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGGTGGCATTGGGGTGTATGCTGCGGTCAACTCGTTGTACAATGTGGAGGGAGGGCACCGAGCCATTGTGTTTAATCGCATTGTAGGTGTCAAGGATAAGgtgagtgagtgagtgagtgtgaattgcattggtctttgatgagacggaatttggatttgttttagggtttggattttgacgatcgtggcggatttcgaggatggccttgcag

Basic information

species Physcomitrella patens
transcript PP1S41_59V6.1
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S41_59V6.1 (Physcomitrella patens), 5'ss of exon 1
lower sequence: GLYMA12G01850.1 (Glycine max), 5'ss of exon 1
CGGTGGCATTGGGGTGTATGCTGCGGTCAACTCGTTGTACAATGTGGAGGGAGGGCACCGAGCCATTGTGTTTAATCGCATTGTAGGTGTCAAGGATAAGgtgagtgagtga---gtgagtgtgaattgcattggtctttgatgagacggaatttggatttgttttagggtttggatt--ttgacgatcgtggcggatttcgaggatggccttgcag
 |||||  |||  || ||||  || |  |||   ||||||||||| |||||||| || ||||||||||| || |||||  |||| ||||||||||||||||| | |   |      ||| ||| || || ||     |||  |   |   || ||| |  | |||| |  |     ||  |||| |   ||     | |   |              
TGGTGGGCTTGTTGTTTATGGGGCTGCAAACAGCTTGTACAATGTTGAGGGAGGTCATCGAGCCATTGTCTTCAATCGTGTTGTCGGTGTCAAGGATAAGgttattccattgtccatgactgttaaatgaatga---tttcctttaatttaacttgcaactctttttgcatcatctttagttgaagtctgtactcaaatgaaa--------------

upper sequence: PP1S41_59V6.1 (Physcomitrella patens), 5'ss of exon 1
lower sequence: GLYMA11G11670.2 (Glycine max), 5'ss of exon 2
CGGTGGCATTGGGGTGTATGCTGCGGTCAACTCGTTGTACAATGTGGAGGGAGGGCACCGAGCCATTGTGTTTAATCGCATTGTAGGTGTCAAGGATAAGgtgagtgagtga---gtgagtgtgaattgcattggtcttt-gatgagacggaatttggatttgttttagggtttggatt--ttgacgatcgtggcggatttcgaggatggccttgcag
 |||||  |||  || ||||  || |  |||   ||||||||||| |||||||| || ||||||||||| || |||||  |||| |||||||| |||||||| | |   |      ||| |||  | || ||   | |||  |||  | | || ||| |     ||| |  |     ||  |||| |   ||   | | |                  
TGGTGGGCTTGTTGTATATGGGGCTGCAAACAGCTTGTACAATGTTGAGGGAGGTCATCGAGCCATTGTCTTCAATCGTGTTGTCGGTGTCAAAGATAAGgttattccattgtccatgactgttgaatgaatgatttttttaatgtaatgcaacttgcaacgccttttgcatcaactttagttgaagtctgta-tgtactc-----------------

upper sequence: PP1S41_59V6.1 (Physcomitrella patens), 5'ss of exon 1
lower sequence: Vv19s0085g00730.t01 (Vitis vinifera), 5'ss of exon 3
CGGTGGCATTGGGGTGTATGCTGCGGTCAACTCGTTGTACAATGTGGAGGGAGGGCACCGAGCCATTGTGTTTAATCGCATTGTAGGTGTCAAGGATAAGgtgagtgagtgagtgagtgtgaattgcat-tggtctttgatgagacggaatttggatttgttttagggtttggattttgacgatcgtggcggatttcgaggatggccttgcag
 |||||  ||||  ||||||  ||  | |||    |||||||||| |||||||| || || |||||||||||||||||||| || ||||||||||| |||||       |      | ||   |||||| ||     |||        || ||   ||||| |  |  | |    |||   |   ||    | |||      |          
TGGTGGGCTTGGTTTGTATGGAGCTATTAACAGTCTGTACAATGTTGAGGGAGGTCATCGGGCCATTGTGTTTAATCGCATAGTTGGTGTCAAGGACAAGgttctcatttccccttg-gtttcttgcatatgagacctgaaatccattaaattatttttgtctctgcttatatggttttttgg--gtaattgcttttagattt----------

upper sequence: PP1S41_59V6.1 (Physcomitrella patens), 5'ss of exon 1
lower sequence: Vv15s0048g02350.t01 (Vitis vinifera), 5'ss of exon 3
CGGTGGCATTGGGGTGTATGCTGCGGTCAACTCGTTGTACAATGTGGAGGGAGGGCACCGAGCCATTGTGTTTAATCGCATTGTAGGTGTCAAGGATAAGgtgagtgagtgagtgagtgtgaattgcattggtctttgatgagacggaatttggatttgttttagggtttggattttgacgatcgtggcggatttcgaggatggccttgcag--
 |||||  ||||  ||||||  ||  | |||    |||||||||| |||||||| || || ||||||||||||||||||||  | |||||||| ||||||||                     |  | ||||| | |         ||  |   ||   ||  |   |||   | |  ||     |||    ||| |   || || ||      
TGGTGGGCTTGGATTGTATGGAGCTATTAACAGTCTGTACAATGTTGAGGGAGGCCATCGGGCCATTGTGTTTAATCGCATAATTGGTGTCAAAGATAAGgtt--------------ctcatttccccttggtttcttgcatatgagacctaaaatccattaaattatttttgtctctacttatatggtttttttgggtaattgcttttagatt

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|18359062|gb|BJ191122.1|BJ191122
EST:     GAGGGCACCGAGCCATTGTGTTTAATCGCATTGTAGGTGTCAAGGATAAG                         GTGTATCCAGAGGGAACGCATTTTATGATTCCCTGGTTCGACAGGCCTGTG
genomic: GAGGGCACCGAGCCATTGTGTTTAATCGCATTGTAGGTGTCAAGGATAAGgtgagtgagt ... ggccttgcagGTGTATCCAGAGGGAACGCATTTTATGATTCCCTGGTTCGACAGGCCTGTG
EST: gi|162223901|gb|FC398907.1|FC398907
EST:     GAGGGCACCGAGCCATTGTGTTTAATCGCATTGTAGGTGTCAAGGATAAG                         GTGTATCCAGAGGGAACGCATTTTATGATTCCCTGGTTCGACAGGCCTGTG
genomic: GAGGGCACCGAGCCATTGTGTTTAATCGCATTGTAGGTGTCAAGGATAAGgtgagtgagt ... ggccttgcagGTGTATCCAGAGGGAACGCATTTTATGATTCCCTGGTTCGACAGGCCTGTG