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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCTAAGACTACCAAGAAGATTGTACTGAGGTTACAGTGCCAGGCTTGCAAGCACGTGACACAACATCCTATCAAGgtaattagtcctttactctgtgcgcactatgaggtaaacactggtgtgtatgtcattaatacataatgatgttttgttgttcattcgtgtaacatgtgtgttcgtttaattttacag

Basic information

species Physcomitrella patens
transcript PP1S22_326V6.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S22_326V6.1 (Physcomitrella patens), 5'ss of exon 4
lower sequence: GLYMA08G19320.2 (Glycine max), 5'ss of exon 3
GCTAAGACTACCAAGAAGATTGTACTGAGGTTACAGTGCCAGGCTTGCAAGCACGTGACACAACATCCTATCAAGgtaattagtcctttactctgtgcgcactatgaggtaaacactggtgtgtatgtcattaatacataatgatgttttgttgttcat----tcgtgta-acatgtgtgttcgtttaattttacag-------
|||||||| |||||||||||||| |||||||| || ||||||| ||||||||| ||  | |||||  |||| ||||| | ||     | |            | | | ||      | |   | ||||  |   |   ||||| | | ||  |||  ||    | ||| | |  ||   |  | || |  ||    |       
GCTAAGACCACCAAGAAGATTGTTCTGAGGTTGCAATGCCAGGGTTGCAAGCATGTCTCCCAACACGCTATTAAGgttagtatatggtaaacaaaacaatggtttaaagtggttgtttg---gcatgtgctgtgtggctaatggtttgttcctgtctatgttgttgtgcagaggtgcaagcactttgagattggtggtgacaag

upper sequence: PP1S22_326V6.1 (Physcomitrella patens), 5'ss of exon 4
lower sequence: GLYMA08G19320.1 (Glycine max), 5'ss of exon 3
GCTAAGACTACCAAGAAGATTGTACTGAGGTTACAGTGCCAGGCTTGCAAGCACGTGACACAACATCCTATCAAGgtaattagtcctttactctgtgcgcactatgaggtaaacactggtgtgtatgtcattaatacataatgatgttttgttgttcat-tcgtgtaacatgtgtgttcgtttaattttacag
|||||||| |||||||||||||| |||||||| || ||||||| ||||||||| ||  | |||||  |||| ||||| | ||     | |            | | | ||      | |   | ||||  |   |   ||||| | | ||  |||  || | ||    ||                       
GCTAAGACCACCAAGAAGATTGTTCTGAGGTTGCAATGCCAGGGTTGCAAGCATGTCTCCCAACACGCTATTAAGgttagtatatggtaaacaaaacaatggtttaaagtggttgtttg---gcatgtgctgtgtggctaatggtttgttcctgtctatgttgttgtgcag----------------------

upper sequence: PP1S22_326V6.1 (Physcomitrella patens), 5'ss of exon 4
lower sequence: GLYMA15G05670.1 (Glycine max), 5'ss of exon 3
GCTAAGACTACCAAGAAGATTGTACTGAGGTTACAGTGCCAGGCTTGCAAGCACGTGACACAACATCCTATCAAGgtaatta-gtcctttactctgtgcgcactatgaggtaaacactggtgtgtatgtcattaatacataatgatgttt-tgttgttcattcgtgtaacatgtgtgttcgtttaattttacag
||||| || |||||||||||||| |||||||| || ||||||| ||||||||| ||  | |||||  |||| ||||| | ||  |      |  ||   ||  | |  | |  |   ||||||||   | ||   |      |  ||| | |||||| ||                                  
GCTAAAACCACCAAGAAGATTGTTCTGAGGTTGCAATGCCAGGGTTGCAAGCATGTCTCCCAACACGCTATTAAGgttagtatatggaaagcaatggatgcttttttggttccatg-tggtgtgtggctaatggttgttagttcctgtctatgttgtgcag---------------------------------

upper sequence: PP1S22_326V6.1 (Physcomitrella patens), 5'ss of exon 4
lower sequence: Vv13s0064g00880.t01 (Vitis vinifera), 5'ss of exon 3
GCTAAGACTACCAAGAAGATTGTACTGAGGTTACAGTGCCAGGCTTGCAAGCACGTGACACAACATCCTATCAAGgtaattagtcctttactctgtgcgcactatgaggtaaacactggtgtgtatgtcattaatacataatgatgttttgttgttcattcgtgtaacatgtgtgttcgtttaattttacag
|||||||| |||||||||||||| |||||| | |||||||||| |||||| |||||  | || || || |||||||| |  |||| |   |||             || || ||  |  | |   || | ||  |     |     |  | ||   ||   |  |      |||     ||   |||| |||
GCTAAGACCACCAAGAAGATTGTTCTGAGGCTCCAGTGCCAGGGTTGCAAACACGTATCCCAGCACCCAATCAAGgtcag-agtcttaacctc------------aagctacacttttcttttcctgccttttgtgttacaccccttacttttacacaactgaatttttgttgttgcaattgggttttgcag

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|18368682|gb|BJ200767.1|BJ200767
EST:     TGAGGTTACAGTGCCAGGCTTGCAAGCACGTGACACAACATCCTATCAAG                         CGATGCAAGCACTTCGAGATCGGAGGAGACAAGAAGGGCAAGGGAACACAA
genomic: TGAGGTTACAGTGCCAGGCTTGCAAGCACGTGACACAACATCCTATCAAGgtaattagtc ... aattttacagCGATGCAAGCACTTCGAGATCGGAGGAGACAAGAAGGGCAAGGGAACACAA
EST: gi|162262338|gb|FC437665.1|FC437665
EST:     TGAGGTTACAGTGCCAGGCTTGCAAGCACGTGACACAACATCCTATCAAG                         CGATGCAAGCACTTCGAGATCGGAGGAGACAAGAAGGGCAAGGGAACACAA
genomic: TGAGGTTACAGTGCCAGGCTTGCAAGCACGTGACACAACATCCTATCAAGgtaattagtc ... aattttacagCGATGCAAGCACTTCGAGATCGGAGGAGACAAGAAGGGCAAGGGAACACAA
EST: gi|162228552|gb|FC404150.1|FC404150
EST:     TGAGGTTACAGTGCCAGGCTTGCAAGCACGTGACACAACATCCTATCAAG                         CGATGCAAGCACTTCGAGATCGGAGGAGACAAGAAGGGCAAGGGAACACAA
genomic: TGAGGTTACAGTGCCAGGCTTGCAAGCACGTGACACAACATCCTATCAAGgtaattagtc ... aattttacagCGATGCAAGCACTTCGAGATCGGAGGAGACAAGAAGGGCAAGGGAACACAA
EST: gi|18335674|gb|BJ167694.1|BJ167694
EST:     TGAGGTTACAGTGCCAGGCTTGCAAGCACGTGACACAACATCCTATCAAG                         CGATGCAAGCACTTCGAGATCGGAGGAGACAAGAAGGGCAAGGGAACACAA
genomic: TGAGGTTACAGTGCCAGGCTTGCAAGCACGTGACACAACATCCTATCAAGgtaattagtc ... aattttacagCGATGCAAGCACTTCGAGATCGGAGGAGACAAGAAGGGCAAGGGAACACAA
EST: gi|18360736|gb|BJ192799.1|BJ192799
EST:     TGAGGTTACAGTGCCAGGCTTGCAAGCACGTGACACAACATCCTATCAAG                         CGATGCAAGCACTTCGAGATCGGAGGAGACAAGAAGGGCAAGGGAACACAA
genomic: TGAGGTTACAGTGCCAGGCTTGCAAGCACGTGACACAACATCCTATCAAGgtaattagtc ... aattttacagCGATGCAAGCACTTCGAGATCGGAGGAGACAAGAAGGGCAAGGGAACACAA
EST: gi|162225415|gb|FC401193.1|FC401193
EST:     TGAGGTTACAGTGCCAGGCTTGCAAGCACGTGACACAACATCCTATCAAG                         CGATGCAAGCACTTCGAGATCGGAGGAGACAAGAAGGGCAAGGGAACACAA
genomic: TGAGGTTACAGTGCCAGGCTTGCAAGCACGTGACACAACATCCTATCAAGgtaattagtc ... aattttacagCGATGCAAGCACTTCGAGATCGGAGGAGACAAGAAGGGCAAGGGAACACAA
EST: gi|162221524|gb|FC397541.1|FC397541
EST:     TGAGGTTACAGTGCCAGGCTTGCAAGCACGTGACACAACATCCTATCAAG                         CGATGCAAGCACTTCGAGATCGGAGGAGACAAGAAGGGCAAGGGAACACAA
genomic: TGAGGTTACAGTGCCAGGCTTGCAAGCACGTGACACAACATCCTATCAAGgtaattagtc ... aattttacagCGATGCAAGCACTTCGAGATCGGAGGAGACAAGAAGGGCAAGGGAACACAA
EST: gi|67575316|gb|BJ948140.1|BJ948140
EST:     TGAGGTTACAGTGCCAGGCTTGCAAGCACGTGACACAACATCCTATCAAG                         CGATGCAAGCACTTCGAGATCGGAGGAGACAAGAAGGGCAAGGGAACACAA
genomic: TGAGGTTACAGTGCCAGGCTTGCAAGCACGTGACACAACATCCTATCAAGgtaattagtc ... aattttacagCGATGCAAGCACTTCGAGATCGGAGGAGACAAGAAGGGCAAGGGAACACAA
EST: gi|67698779|gb|BJ959012.1|BJ959012
EST:     TGAGGTTACAGTGCCAGGCTTGCAAGCACGTGACACAACATCCTATCAAG                         CGATGCAAGCACTTCGAGATCGGAGGAGACAAGAAGGGCAAGGGAACACAA
genomic: TGAGGTTACAGTGCCAGGCTTGCAAGCACGTGACACAACATCCTATCAAGgtaattagtc ... aattttacagCGATGCAAGCACTTCGAGATCGGAGGAGACAAGAAGGGCAAGGGAACACAA
EST: gi|18327408|gb|BJ159410.1|BJ159410
EST:     TGAGGTTACAGTGCCAGGCTTGCAAGCACGTGACACAACATCCTATCAAG                         CGATGCAAGCACTTCGAGATCGGAGGAGACAAGAAGGGCAAGGGAACACAA
genomic: TGAGGTTACAGTGCCAGGCTTGCAAGCACGTGACACAACATCCTATCAAGgtaattagtc ... aattttacagCGATGCAAGCACTTCGAGATCGGAGGAGACAAGAAGGGCAAGGGAACACAA