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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtttcatacgatagaagaagtgacaagcataacttagggtgatatgatgatgctactggatcatttcggatcactaaatattgatatcaattgtgtgcagTTCCCTGACATGATCCACGCCTTGAAGCCAAACCCAAAGAGTCACATCCAGGAGGCATGGCGAATAATGGACTTTTTCTCGCACGTTCCCGAATCCTGCA

Basic information

species Physcomitrella patens
transcript PP1S422_8V6.3
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S422_8V6.3 (Physcomitrella patens), 3'ss of exon 2
lower sequence: EDP00871 (Chlamydomonas reinhardtii), 3'ss of exon 5
-------------------------------------------------------------------------------------------------gtttcatacgatagaagaagtgacaagcata-acttagggtgatatgatgatgctactggatcatttcggatcactaaatattgatat-caattgtgtgcagTTCCCTGACATGATCCACGCCTTGAAGCCAAACCCAAAGAGTCACATCCAGGAGGCATGGCGAATAATGGACTTTTTCTCGCACGTTCCCGAATCCTGCA
                                                                                                     | | ||         | |  | | ||  |||| |    |      | |  | ||   ||| | |    ||     | || ||   | |  |  || ||||||| |||||| | |||||||| ||||| ||||| ||||| |||||||||||||| ||||| || |||||||                           
gtgaggaggcatggggaggaggagggaaggacggaggggctgcttggcgcgcataaggccgcatacggagggcctttgcttgtaggctctggtaggcccaccttccgccgcggcccgcgctatgtatccacttcgccccactactggctcttcctctttcaatgcttgccagGTGTTCTTCATCCGCGACGGCATGAAGTTCCCGGACATGGTTCACGCCTTCAAGCCCAACCCCAAGAGCCACATCCAGGAGGCCTGGCGCATTATGGACT---------------------------

upper sequence: PP1S422_8V6.3 (Physcomitrella patens), 3'ss of exon 2
lower sequence: EFJ37039 (Selaginella moellendorffii), 3'ss of exon 3
gtttcatacgatagaagaagtgacaagcataacttagggtgatatgatgatgctactggatcatttcggatcactaaatattgatatcaattgtgtgcagTTCCCTGACATGATCCACGCCTTGAAGCCAAACCCAAAGAGTCA-CATCCAGGA-GGCATGGCGAATAATGGACTTTTTCTCGCACGTTCCCGAATCCTGCA--
                         || | |   |  |||||| |    | | |     |  |  |   |||  | | | ||        |||| |||         |  |       |  | ||| | | |  |      ||  | | |  || |||||   |     ||   |  | | ||| |     | || ||   |  
----------------------gtgagtaaactatctggtgatgttgctaagttgg-acacgaaattccatctttgacttttttcgct--ttgtttgcgagcagGGAAACTTCGATCTGGTTGGAAACAACATTCCCGTGTTCTTCGTACGTGATGGCATCAAGTTCCCTGACATGATCCACGCTCTCAAGCCAAACCCAAAGA

upper sequence: PP1S422_8V6.3 (Physcomitrella patens), 3'ss of exon 2
lower sequence: EFJ33688 (Selaginella moellendorffii), 3'ss of exon 3
-----------------------------gtttcatacgatagaagaagt--gacaagcataacttagggtgatatgatgatgctactggatcatttcggatcacta-------aatattgatat-caattgtgtgcagTTCCCTGACATGATCCACGCCTTGAAGCCAAACCCAAAGAGTCACATCCAGGAGGCATGGCGAATAATGGACTTTTTCTCGCACGTTCCCGAATCCTGCA
                             |||  | |||| |    |  |  |||     |  ||| |  ||  |  | |        |      || | | ||  |         | ||  ||    || |  |  ||||||||||||||||||||||  | ||||||||||||||||                                                            
gtgagtaaactatctggtcatgttgctaagttggacacgaaattccatctttgacttttttcgctttgtttgcgagcagGGAAACTTCGATCTGGTTGGAAACAACATTCCCGTGTTCTTCGTACGTGATGGCATCAAGTTCCCTGACATGATCCACGCTCTCAAGCCAAACCCAAAGA------------------------------------------------------------

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|100384130|gb|BY950516.1|BY950516
EST:     ACATGGTTGGCAATAATATTCCAGTCTTCTTCATCCGAGACGGTATTAAG                         TTCCCTGACATGATCCACGCCTTGAAGCCAAACCCAAAGAGTCACATCCAG
genomic: ACATGGTTGGCAATAATATTCCAGTCTTCTTCATCCGAGACGGTATTAAGgtatcttcta ... ttgtgtgcagTTCCCTGACATGATCCACGCCTTGAAGCCAAACCCAAAGAGTCACATCCAG
EST: gi|208383448|gb|DC911200.1|DC911200
EST:     ACATGGTTGGCAATAATATTCCAGTCTTCTTCATCCGAGACGGTATTAAG                         TTCCCTGACATGATCCACGCCTTGAAGCCAAACCCAAAGAGTCACATCCAG
genomic: ACATGGTTGGCAATAATATTCCAGTCTTCTTCATCCGAGACGGTATTAAGgtatcttcta ... ttgtgtgcagTTCCCTGACATGATCCACGCCTTGAAGCCAAACCCAAAGAGTCACATCCAG
EST: gi|162240135|gb|FC418262.1|FC418262
EST:     ACATGGTTGGCAATAATATTCCAGTCTTCTTCATCCGAGACGGTATTAAG                         TTCCCTGACATGATCCACGCCTTGAAGCCAAACCCAAAGAGTCACATCCAG
genomic: ACATGGTTGGCAATAATATTCCAGTCTTCTTCATCCGAGACGGTATTAAGgtatcttcta ... ttgtgtgcagTTCCCTGACATGATCCACGCCTTGAAGCCAAACCCAAAGAGTCACATCCAG
EST: gi|162225471|gb|FC401223.1|FC401223
EST:     ACATGGTTGGCAATAATATTCCAGTCTTCTTCATCCGAGACGGTATTAAG                         TTCCCTGACATGATCCACGCCTTGAAGCCAAACCCAAAGAGTCACATCCAG
genomic: ACATGGTTGGCAATAATATTCCAGTCTTCTTCATCCGAGACGGTATTAAGgtatcttcta ... ttgtgtgcagTTCCCTGACATGATCCACGCCTTGAAGCCAAACCCAAAGAGTCACATCCAG
EST: gi|100435548|gb|BY960968.1|BY960968
EST:     ACATGGTTGGCAATAATATTCCAGTCTTCTTCATCCGAGACGGTATTAAG                         TTCCCTGACATGATCCACGCCTTGAAGCCAAACCCAAAGAGTCACATCCAG
genomic: ACATGGTTGGCAATAATATTCCAGTCTTCTTCATCCGAGACGGTATTAAGgtatcttcta ... ttgtgtgcagTTCCCTGACATGATCCACGCCTTGAAGCCAAACCCAAAGAGTCACATCCAG
EST: gi|100404321|gb|BY973518.1|BY973518
EST:     ACATGGTTGGCAATAATATTCCAGTCTTCTTCATCCGAGACGGTATTAAG                         TTCCCTGACATGATCCACGCCTTGAAGCCAAACCCAAAGAGTCACATCCAG
genomic: ACATGGTTGGCAATAATATTCCAGTCTTCTTCATCCGAGACGGTATTAAGgtatcttcta ... ttgtgtgcagTTCCCTGACATGATCCACGCCTTGAAGCCAAACCCAAAGAGTCACATCCAG
EST: gi|162180481|gb|FC356123.1|FC356123
EST:     ACATGGTTGGCAATAATATTCCAGTCTTCTTCATCCGAGACGGTATTAAG                         TTCCCTGACATGATCCACGCCTTGAAGCCGAACCCAAAGAGTCACATCCAG
genomic: ACATGGTTGGCAATAATATTCCAGTCTTCTTCATCCGAGACGGTATTAAGgtatcttcta ... ttgtgtgcagTTCCCTGACATGATCCACGCCTTGAAGCCAAACCCAAAGAGTCACATCCAG
EST: gi|162232950|gb|FC407551.1|FC407551
EST:     ACATGGTTGGCAATAATATTCCAGTCTTCTTCATCCGAGACGGTATTAAG                         TTCCCTGACATGATCCACGCCTTGAAGCCAAACCCAAAGAGTCACATCCAG
genomic: ACATGGTTGGCAATAATATTCCAGTCTTCTTCATCCGAGACGGTATTAAGgtatcttcta ... ttgtgtgcagTTCCCTGACATGATCCACGCCTTGAAGCCAAACCCAAAGAGTCACATCCAG
EST: gi|162153220|gb|FC329002.1|FC329002
EST:     ACATGGTTGGCAATAATATTCCAGTCTTCTTCATCCGAGACGGTATTAAG                         TTCCCTGACATGATCCACGCCTTGAAGCCAAACCCAAAGAGTCACATCCAG
genomic: ACATGGTTGGCAATAATATTCCAGTCTTCTTCATCCGAGACGGTATTAAGgtatcttcta ... ttgtgtgcagTTCCCTGACATGATCCACGCCTTGAAGCCAAACCCAAAGAGTCACATCCAG
EST: gi|100358243|gb|BY965545.1|BY965545
EST:     ACATGGTTGGCAATAATATTCCAGTCTTCTTCATCCGAGACGGTATTAAG                         TTCCCTGACATGATCCACGCCTTGAAGCCAAACCCAAAGAGTCACATCCAG
genomic: ACATGGTTGGCAATAATATTCCAGTCTTCTTCATCCGAGACGGTATTAAGgtatcttcta ... ttgtgtgcagTTCCCTGACATGATCCACGCCTTGAAGCCAAACCCAAAGAGTCACATCCAG
EST: gi|162170490|gb|FC347649.1|FC347649
EST:     ACATGGTTGGCAATAATATTCCAGTCTTCTTCATCCGAGACGGTATTAAG                         TTCCCTGACATGATCCACGCCTTGAAGCCAAACCCAAAGAGTCACATCCAG
genomic: ACATGGTTGGCAATAATATTCCAGTCTTCTTCATCCGAGACGGTATTAAGgtatcttcta ... ttgtgtgcagTTCCCTGACATGATCCACGCCTTGAAGCCAAACCCAAAGAGTCACATCCAG
EST: gi|100444734|gb|BY982563.1|BY982563
EST:     ACATGGTTGGCAATAATATTCCAGTCTTCTTCATCCGAGACGGTATTAAG                         TTCCCTGACATGATCCACGCCTTGAAGCCAAACCCAAAGAGTCACATCCAG
genomic: ACATGGTTGGCAATAATATTCCAGTCTTCTTCATCCGAGACGGTATTAAGgtatcttcta ... ttgtgtgcagTTCCCTGACATGATCCACGCCTTGAAGCCAAACCCAAAGAGTCACATCCAG
EST: gi|162267693|gb|FC443475.1|FC443475
EST:     ACATGGTTGGCAATAATATTCCAGTCTTCTTCATCCGAGACGGTATTAAG                         TTCCCTGACATGATCCACGCCTTGAAGCCAAACCCAAAGAGTCACATCCAG
genomic: ACATGGTTGGCAATAATATTCCAGTCTTCTTCATCCGAGACGGTATTAAGgtatcttcta ... ttgtgtgcagTTCCCTGACATGATCCACGCCTTGAAGCCAAACCCAAAGAGTCACATCCAG
EST: gi|100376391|gb|BY986144.1|BY986144
EST:     ACATGGTTGGCAATAATATTCCAGTCTTCTTCATCCGAGACGGTATTAAG                         TTCCCTGACATGATCCACGCCTTGAAGCCAAACCCAAAGAGTCACATCCAG
genomic: ACATGGTTGGCAATAATATTCCAGTCTTCTTCATCCGAGACGGTATTAAGgtatcttcta ... ttgtgtgcagTTCCCTGACATGATCCACGCCTTGAAGCCAAACCCAAAGAGTCACATCCAG
EST: gi|18357595|gb|BJ189654.1|BJ189654
EST:     ACATGGTTGGCAATAATATTCCAGTCTTCTTCATCCGAGACGGTATTAAG                         TTCCCTGACATGATCCACGCCTTGAAGC
genomic: ACATGGTTGGCAATAATATTCCAGTCTTCTTCATCCGAGACGGTATTAAGgtatcttcta ... ttgtgtgcagTTCCCTGACATGATCCACGCCTTGAAGC
EST: gi|162264609|gb|FC441204.1|FC441204
EST:     ACATGGTTGGCAATAATATTCCAGTCTTCTTCATCCGAGACGGTATTAAG                         TTCCCTGACATGATCCACGCCTTGAAGCCAAACCCAAAGAGTCACATCCAG
genomic: ACATGGTTGGCAATAATATTCCAGTCTTCTTCATCCGAGACGGTATTAAGgtatcttcta ... ttgtgtgcagTTCCCTGACATGATCCACGCCTTGAAGCCAAACCCAAAGAGTCACATCCAG
EST: gi|162158124|gb|FC333919.1|FC333919
EST:     ACATGGTTGGCAATAATATTCCAGTCTTCTTCATCCGAGACGGTATTAAG                         TTCCCTGACATGATCCACGCCTTGAAGCCAAACCCAAAGAGTCACATCCAG
genomic: ACATGGTTGGCAATAATATTCCAGTCTTCTTCATCCGAGACGGTATTAAGgtatcttcta ... ttgtgtgcagTTCCCTGACATGATCCACGCCTTGAAGCCAAACCCAAAGAGTCACATCCAG
EST: gi|67569863|gb|BJ942687.1|BJ942687
EST:     ACATGGTTGGCAATAATATTCCAGTCTTCTTCATCCGAGACGGTATTAAG                         TTCCCTGACATGATCCACGCCTTGAAGCCAAACCCAAAGAGTCACATCCAG
genomic: ACATGGTTGGCAATAATATTCCAGTCTTCTTCATCCGAGACGGTATTAAGgtatcttcta ... ttgtgtgcagTTCCCTGACATGATCCACGCCTTGAAGCCAAACCCAAAGAGTCACATCCAG
EST: gi|162179286|gb|FC356235.1|FC356235
EST:     ACATGGTTGGCAATAATATTCCAGTCTTCTTCATCCGAGACGGTATTAAG                         TTCCCTGACATGATCCACGCCTTGAAGCCAAACCCAAAGAGTCACATCCAG
genomic: ACATGGTTGGCAATAATATTCCAGTCTTCTTCATCCGAGACGGTATTAAGgtatcttcta ... ttgtgtgcagTTCCCTGACATGATCCACGCCTTGAAGCCAAACCCAAAGAGTCACATCCAG
EST: gi|162221788|gb|FC398355.1|FC398355
EST:     ACATGGTTGGCAATAATATTCCAGTCTTCTTCATCCGAGACGGTATTAAG                         TTCCCTGACATGATCCACGCCTTGAAGCCAAACCCAAAGAGTCACATCCAG
genomic: ACATGGTTGGCAATAATATTCCAGTCTTCTTCATCCGAGACGGTATTAAGgtatcttcta ... ttgtgtgcagTTCCCTGACATGATCCACGCCTTGAAGCCAAACCCAAAGAGTCACATCCAG
EST: gi|162175799|gb|FC352101.1|FC352101
EST:     ACATGGTTGGCAATAATATTCCAGTCTTCTTCATCCGAGACGGTATTAAG                         TTCCCTGACATGATCCACGCCTTGAAGCCAAACCCAAAGAGTCACATCCAG
genomic: ACATGGTTGGCAATAATATTCCAGTCTTCTTCATCCGAGACGGTATTAAGgtatcttcta ... ttgtgtgcagTTCCCTGACATGATCCACGCCTTGAAGCCAAACCCAAAGAGTCACATCCAG
EST: gi|100441089|gb|BY980710.1|BY980710
EST:     ACATGGTTGGCAATAATATTCCAGTCTTCTTCATCCGAGACGGTATTAAG                         TTCCCTGACATGATCCACGCCTTGAAGCCAAACCCAAAGAGTCACATCCAG
genomic: ACATGGTTGGCAATAATATTCCAGTCTTCTTCATCCGAGACGGTATTAAGgtatcttcta ... ttgtgtgcagTTCCCTGACATGATCCACGCCTTGAAGCCAAACCCAAAGAGTCACATCCAG
EST: gi|162157350|gb|FC333465.1|FC333465
EST:     ACATGGTTGGCAATAATATTCCAGTCTTCTTCATCCGAGACGGTATTAAG                         TTCCCTGACATGATCCACGCCTTGAAGCCAAACCCAAAGAGTCACATCCAG
genomic: ACATGGTTGGCAATAATATTCCAGTCTTCTTCATCCGAGACGGTATTAAGgtatcttcta ... ttgtgtgcagTTCCCTGACATGATCCACGCCTTGAAGCCAAACCCAAAGAGTCACATCCAG
EST: gi|162162217|gb|FC337999.1|FC337999
EST:     ACATGGTTGGCAATAATATTCCAGTCTTCTTCATCCGAGACGGTATTAAG                         TTCCCTGACATGATCCACGCCTTGAAGCCAAACCCAAAGAGTCACATCCAG
genomic: ACATGGTTGGCAATAATATTCCAGTCTTCTTCATCCGAGACGGTATTAAGgtatcttcta ... ttgtgtgcagTTCCCTGACATGATCCACGCCTTGAAGCCAAACCCAAAGAGTCACATCCAG
EST: gi|162185084|gb|FC362218.1|FC362218
EST:     ACATGGTTGGCAATAATATTCCAGTCTTCTTCATCCGAGACGGTATTAAG                         TTCCCTGACATGATCCACGCCTTGAAGCCAAACCCAAAGAGTCACATCCAG
genomic: ACATGGTTGGCAATAATATTCCAGTCTTCTTCATCCGAGACGGTATTAAGgtatcttcta ... ttgtgtgcagTTCCCTGACATGATCCACGCCTTGAAGCCAAACCCAAAGAGTCACATCCAG
EST: gi|162185869|gb|FC360969.1|FC360969
EST:     ACATGGTTGGCAATAATATTCCAGTCTTCTTCATCCGAGACGGTATTAAG                         TTCCCTGACATGATCCACGCCTTGAAGCCAAACCCAAAGAGTCACATCCAG
genomic: ACATGGTTGGCAATAATATTCCAGTCTTCTTCATCCGAGACGGTATTAAGgtatcttcta ... ttgtgtgcagTTCCCTGACATGATCCACGCCTTGAAGCCAAACCCAAAGAGTCACATCCAG
EST: gi|162200569|gb|FC376764.1|FC376764
EST:     ACATGGTTGGCAATAATATTCCAGTCTTCTTCATCCGAGACGGTATTAAG                         TTCCCTGACATGATCCACGCCTTGAAGCCAAACCCAAAGAGTCACATCCAG
genomic: ACATGGTTGGCAATAATATTCCAGTCTTCTTCATCCGAGACGGTATTAAGgtatcttcta ... ttgtgtgcagTTCCCTGACATGATCCACGCCTTGAAGCCAAACCCAAAGAGTCACATCCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gatgatgctactggatcatttcggatcactaaatattgatatcaattgtgtgcagTTCCCTGACATGATCCACGCCTTGAAGCCAAACCCAAAGAGTCACATCCAGGAGGCATGGCGAATAATGGACTTTTTCTCGCACGTTCCCGAATCCTGCA
                             taaatattgatatcaa  TA-rich tract