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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATGTTGCGCCTTGGACTCAGCGACCTGCTGCGATGATCACTACCACTGCTGCCCTCACGAGTACCCAATCTGCAACCTGGATGCAGGACTTTGCCTCAAGgtgcagcgccactcttctcactcaaaagcaacgtccttgtatcatcacagcttctgctatctgctcgcagctaatgtttcaattctgagaataccaccatcagtgcccagttttgaggtatgcagatgtctaaaagctaattgtgtgagtcgaatgttgtgctactgcag

Basic information

species Physcomitrella patens
transcript PP1S292_39V6.2
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S292_39V6.2 (Physcomitrella patens), 5'ss of exon 4
lower sequence: LOC_Os04g55650.1 (Oryza sativa), 5'ss of exon 4
ATGTTGCGCCTTGGACTCAGCGACCTGCTGCGATGATCACTACCACTGCTGCCCTCACGAGTACCCAATCTGCAACCTGGATGCAGGACTTTGCCTCAAGgtgcagcgccactcttctcactcaaaagcaacgtccttgtatcatcacagcttctgctatctgct-cgcagctaatgtttcaattctgagaataccaccatcagtgcccagttttgaggtatgcagatgtctaaaagctaattgtgtgagtcgaatgttgtgctactgcag
 || ||| |  | ||    || |||||||||||||||||||||  ||||||||||||||||||||| ||||||||  |  |    |||   ||||||| |||  |||        |  ||   |   | ||  | || | |   |  ||  | |    ||   ||  |   || |   ||   ||    ||  | ||| | |||                                                                   
CTGCTGCCCACTCGAGGGCGCCACCTGCTGCGATGATCACTACAGCTGCTGCCCTCACGAGTACCCCATCTGCAATGTTCAGCAGGGAACCTGCCTCATGgta-agcaa------ttgcagagattggtaatttactagcactgttgcaagtgcaagaattccctgtgattcttactgttttgttgcttgatgaacacaa-cag-------------------------------------------------------------------

upper sequence: PP1S292_39V6.2 (Physcomitrella patens), 5'ss of exon 4
lower sequence: GRMZM2G166281_T01 (Zea mays), 5'ss of exon 4
ATGTTGCGCCTTGGACTCAGCGACCTGCTGCGATGATCACTACCACTGCTGCCCTCACGAGTACCCAATCTGCAACCTGGATGCAGGACTTTGCCTCAAGgtgca-gcgccactcttctcactcaaaagcaacgtccttgtatcatcacagcttctgctatctgctcgcagctaatgtttcaattctgagaataccaccatcagtgcccagttttgaggtatgcagatgtctaaaagctaattgtgtgagtcgaatgttgtgctactgcag
 || ||| |  | ||    || ||||||||||| |||||||||  ||||||||| || || ||||| ||||||||| |       |||   ||||||| |||  | || |  | | ||||       | |  | ||  |     |         |||| |  | ||  |  || || | | |   | |  ||| |     |    |  |||                                                            
CTGCTGCCCGCTCGAGGGCGCCACCTGCTGCGACGATCACTACAGCTGCTGCCCCCATGACTACCCCATCTGCAACGTCAGGCAGGGAACCTGCCTCATGgtaaatgctcggcccatctcgt----gatcttcttcagttagctacggagataactgccagtttctttcgtctgatctctaa--ccggcaaattcgctgcttgacgaacag------------------------------------------------------------

upper sequence: PP1S292_39V6.2 (Physcomitrella patens), 5'ss of exon 4
lower sequence: EFJ18470 (Selaginella moellendorffii), 5'ss of exon 4
ATGTTGCGCCTTGGACTCAGCGACCTGCTGCGATGATCACTACCACTGCTGCCCTCACGAGTACCCAATCTGCAACCTGGATGCAGGACTTTGCCTCAAGgtgcagcgccactcttctcactcaaaagcaacgtccttgtatcatcacagcttctgctatctgctcgcagctaatgtttcaattctgagaataccaccatcagtgcccagttttgaggtatgcagatgtctaaaagctaattgtgtgagtcgaatgttgtgctactgcag
||| ||  |  |  | || || || |||||||| ||||||||||||||||||||   ||| | ||| ||||||||| |  | ||      |||||||| |||       | |  || |         |||    | ||||  | | |  | |  | |  | || ||      |                                                                                                 
ATGCTGTCCTCTCCAGTCGGCCACTTGCTGCGAGGATCACTACCACTGCTGCCCGTCCGACTTCCCGATCTGCAACTTACAGGCCAACACTTGCCTCAGGgtaagttagctcgtttgttttctgtttgcatacccgttgtggc-tgatcgttcgttcgttgtgatcttccgcag------------------------------------------------------------------------------------------------

upper sequence: PP1S292_39V6.2 (Physcomitrella patens), 5'ss of exon 4
lower sequence: EFJ36576 (Selaginella moellendorffii), 5'ss of exon 4
ATGTTGCGCCTTGGACTCAGCGACCTGCTGCGATGATCACTACCACTGCTGCCCTCACGAGTACCCAATCTGCAACCTGGATGCAGGACTTTGCCTCAAGgtgcagcgccactctt-ctcactcaaaagcaacgtccttgtatcatcacagcttctgctatctgctcgcagctaatgtttcaattctgagaataccaccatcagtgcccagttttgaggtatgcagatgtctaaaagctaattgtgtgagtcgaatgttgtgctactgcag
||| ||| |  |  | || || || |||||||| ||||||||||||||||||||   ||| | ||| ||||||||| |  | ||      |||||||| |||       | |  ||  |   |     |||    | ||||  | | |  | |  | |  | || ||      |                                                                                                 
ATGCTGCCCTCTCCAGTCGGCCACTTGCTGCGACGATCACTACCACTGCTGCCCGTCCGACTTCCCGATCTGCAACTTAAAGGCCAACACTTGCCTCAGGgtaagttagctcgtttgtttttttgtttgcatacccgttgtggc-tgatcgttcgttcgttgtgatcttccgcag------------------------------------------------------------------------------------------------

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|208398843|gb|DC920791.1|DC920791
EST:     GCCCTCACGAGTACCCAATCTGCAACCTGGATGCAGGACTTTGCCTCAAG                         GGATCACACGACAAGGAGGGTGTTGCGCTGATGAAGCGTACACTAGCTCAT
genomic: GCCCTCACGAGTACCCAATCTGCAACCTGGATGCAGGACTTTGCCTCAAGgtgcagcgcc ... gctactgcagGGATCACACGACAAGGAGGGTGTTGCGCTGATGAAGCGTACACTAGCTCAT
EST: gi|67695892|gb|BJ956125.1|BJ956125
EST:     GCCCTCACGAGTACCCAATCTGCAACCTGGATGCAGGACTTTGCCTCAAG                         GGATCACACGACAAGGAGGGTGTTGCGCTGATGAAGCGTACACTAGCTCAT
genomic: GCCCTCACGAGTACCCAATCTGCAACCTGGATGCAGGACTTTGCCTCAAGgtgcagcgcc ... gctactgcagGGATCACACGACAAGGAGGGTGTTGCGCTGATGAAGCGTACACTAGCTCAT
EST: gi|67696190|gb|BJ956423.1|BJ956423
EST:     AATCTGCAACCTGGATGCAGGACTTTGCCTCAAG                         GGATCACACGACAAGGAGGGTGTTGCGCTGATGAAGCGTACACTAGCTCAT
genomic: AATCTGCAACCTGGATGCAGGACTTTGCCTCAAGgtgcagcgcc ... gctactgcagGGATCACACGACAAGGAGGGTGTTGCGCTGATGAAGCGTACACTAGCTCAT
EST: gi|67692929|gb|BJ953162.1|BJ953162
EST:     GCCCTCACGAGTACCCAATCTGCAACCTGGATGCAGGACTTTGCCTCAAG                         GGATCACACGACAAGGAGGGTGTTGCGCTGATGAAGCGTACACTAGCTCAT
genomic: GCCCTCACGAGTACCCAATCTGCAACCTGGATGCAGGACTTTGCCTCAAGgtgcagcgcc ... gctactgcagGGATCACACGACAAGGAGGGTGTTGCGCTGATGAAGCGTACACTAGCTCAT
EST: gi|208356563|gb|DC922353.1|DC922353
EST:     GCCCTCACGAGTACCCAATCTGCAACCTGGATGCAGGACTTTGCCTCAAG                         GGATCACACGACAAGGAGGGTGNTGCGCTGATGAAGCGTACACTAGCTCAT
genomic: GCCCTCACGAGTACCCAATCTGCAACCTGGATGCAGGACTTTGCCTCAAGgtgcagcgcc ... gctactgcagGGATCACACGACAAGGAGGGTGTTGCGCTGATGAAGCGTACACTAGCTCAT
EST: gi|37827016|gb|BJ585028.1|BJ585028
EST:     GCCCTCACGAGTACCCAATCTGCAACCTGGATGCAGGACTTTGCCTCAAG                         GGATCACACGACAAGGAGGGTGTTGCGCTGATGAAGCGTACACTAGCTCAT
genomic: GCCCTCACGAGTACCCAATCTGCAACCTGGATGCAGGACTTTGCCTCAAGgtgcagcgcc ... gctactgcagGGATCACACGACAAGGAGGGTGTTGCGCTGATGAAGCGTACACTAGCTCAT
EST: gi|162175139|gb|FC351181.1|FC351181
EST:     GCCCTCACGAGTACCCAATCTGCAACCTGGATGCAGGACTTTGCCTCAAG                         GGATCACACGACAAGGAGGGTGTTGCGCTGATGAAGCGTACACTAGCTCAT
genomic: GCCCTCACGAGTACCCAATCTGCAACCTGGATGCAGGACTTTGCCTCAAGgtgcagcgcc ... gctactgcagGGATCACACGACAAGGAGGGTGTTGCGCTGATGAAGCGTACACTAGCTCAT
EST: gi|67699516|gb|BJ959749.1|BJ959749
EST:     AACCTGGATGCAGGACTTTGCCTCAAG                         GGATCACACGACAAGGAGGGTGTTGCGCTGATGAAGCGTACACTAGCTCAT
genomic: AACCTGGATGCAGGACTTTGCCTCAAGgtgcagcgcc ... gctactgcagGGATCACACGACAAGGAGGGTGTTGCGCTGATGAAGCGTACACTAGCTCAT
EST: gi|208384383|gb|DC928134.1|DC928134
EST:     GCCCTCACGAGTACCCAATCTGCAACCTGGATGCAGGACTTTGCCTCAAG                         GGATCACACGACAAGGAGGGTGTTGCGCTGATGAAGCGTACACTAGCTCAT
genomic: GCCCTCACGAGTACCCAATCTGCAACCTGGATGCAGGACTTTGCCTCAAGgtgcagcgcc ... gctactgcagGGATCACACGACAAGGAGGGTGTTGCGCTGATGAAGCGTACACTAGCTCAT
EST: gi|162255228|gb|FC431538.1|FC431538
EST:     GCCCTCACGAGTACCCAATCTGCAACCTGGATGCAGGACTTTGCCTCAAG                         GGATCACACGACAAGGAGGGTGTTGCGCTGATGAAGCGTACACTAGCTCAT
genomic: GCCCTCACGAGTACCCAATCTGCAACCTGGATGCAGGACTTTGCCTCAAGgtgcagcgcc ... gctactgcagGGATCACACGACAAGGAGGGTGTTGCGCTGATGAAGCGTACACTAGCTCAT
EST: gi|67579180|gb|BJ951325.1|BJ951325
EST:     GCCCTCACGAGTACCCAATCTGCAACCTGGATGCAGGACTTTGCCTCAAG                         GGATCACACGACAAGGAGGGTGTTGCGCTGATGAAGCGTACACTAGCTCAT
genomic: GCCCTCACGAGTACCCAATCTGCAACCTGGATGCAGGACTTTGCCTCAAGgtgcagcgcc ... gctactgcagGGATCACACGACAAGGAGGGTGTTGCGCTGATGAAGCGTACACTAGCTCAT
EST: gi|208375198|gb|DC945348.1|DC945348
EST:     GCCCTCACGAGTACCCAATCTGCAACCTGGATGCAGGACTTTGCCTCAAG                         GGATCACACGACAAGGAGGGTGTTGCGCTGATGAAGCGTACACTAGCTCAT
genomic: GCCCTCACGAGTACCCAATCTGCAACCTGGATGCAGGACTTTGCCTCAAGgtgcagcgcc ... gctactgcagGGATCACACGACAAGGAGGGTGTTGCGCTGATGAAGCGTACACTAGCTCAT
EST: gi|162261073|gb|FC437454.1|FC437454
EST:     GCCCTCACGAGTACCCAATCTGCAACCTGGATGCAGGACTTTGCCTCAAG                         GGATCACACGACAAGGAGGGTGTTGCGCTGATGAAGCGTACACTAGCTCAT
genomic: GCCCTCACGAGTACCCAATCTGCAACCTGGATGCAGGACTTTGCCTCAAGgtgcagcgcc ... gctactgcagGGATCACACGACAAGGAGGGTGTTGCGCTGATGAAGCGTACACTAGCTCAT
EST: gi|37852856|gb|BJ610864.1|BJ610864
EST:     GCCCTCACGAGTACCCAATCTGCAACCTGGATGCAGGACTTTGCCTCAAG                         GGATCACACGACAAGGAGGGTGTTGCGCTGATGAAGCGTACACTAGCTCAT
genomic: GCCCTCACGAGTACCCAATCTGCAACCTGGATGCAGGACTTTGCCTCAAGgtgcagcgcc ... gctactgcagGGATCACACGACAAGGAGGGTGTTGCGCTGATGAAGCGTACACTAGCTCAT
EST: gi|162250706|gb|FC426555.1|FC426555
EST:     GCCCTCACGAGTACCCAATCTGCAACCTGGATGCAGGACTTTGCCTCAAG                         GGATCACACGACAAGGAGGGTGTTGCGCTGATGAAGCGTACACTAGCTCAT
genomic: GCCCTCACGAGTACCCAATCTGCAACCTGGATGCAGGACTTTGCCTCAAGgtgcagcgcc ... gctactgcagGGATCACACGACAAGGAGGGTGTTGCGCTGATGAAGCGTACACTAGCTCAT
EST: gi|67700692|gb|BJ960925.1|BJ960925
EST:     CCTGGATGCAGGACTTTGCCTCAAG                         GGATCACACGACAAGGAGGGTGTTGCGCTGATGAAGCGTACACTAGCTCAT
genomic: CCTGGATGCAGGACTTTGCCTCAAGgtgcagcgcc ... gctactgcagGGATCACACGACAAGGAGGGTGTTGCGCTGATGAAGCGTACACTAGCTCAT
EST: gi|162250705|gb|FC426554.1|FC426554
EST:     GCCCTCACGAGTACCCAATCTGCAACCTGGATGCAGGACTTTGCCTCAAG                         GGATCACACGACAAGGAGGGTGTTGCGCTGATGAAGCGTACACTAGCTCAT
genomic: GCCCTCACGAGTACCCAATCTGCAACCTGGATGCAGGACTTTGCCTCAAGgtgcagcgcc ... gctactgcagGGATCACACGACAAGGAGGGTGTTGCGCTGATGAAGCGTACACTAGCTCAT
EST: gi|67695026|gb|BJ955259.1|BJ955259
EST:     GCCCTCACGAGTACCCAATCTGCAACCTGGATGCAGGACTTTGCCTCAAG                         GGATCACACGACAAGGAGGGTGTTGCGCTGATGAAGCGTACACTAGCTCAT
genomic: GCCCTCACGAGTACCCAATCTGCAACCTGGATGCAGGACTTTGCCTCAAGgtgcagcgcc ... gctactgcagGGATCACACGACAAGGAGGGTGTTGCGCTGATGAAGCGTACACTAGCTCAT
EST: gi|208396408|gb|DC920074.1|DC920074
EST:     GCCCTCACGAGTACCCAATCTGCAACCTGGATGCAGGACTTTGCCTCAAG                         GGATCACACGACAAGGAGGGTGTTGCGCTGATGAAGCGTACACTAGCTCAT
genomic: GCCCTCACGAGTACCCAATCTGCAACCTGGATGCAGGACTTTGCCTCAAGgtgcagcgcc ... gctactgcagGGATCACACGACAAGGAGGGTGTTGCGCTGATGAAGCGTACACTAGCTCAT
EST: gi|67692416|gb|BJ952649.1|BJ952649
EST:     GCCCTCACGAGTACCCAATCTGCAACCTGGATGCAGGACTTTGCCTCAAG                         GGATCACACGACAAGGAGGGTGTTGCGCTGATGAAGCGTACACTAGCTCAT
genomic: GCCCTCACGAGTACCCAATCTGCAACCTGGATGCAGGACTTTGCCTCAAGgtgcagcgcc ... gctactgcagGGATCACACGACAAGGAGGGTGTTGCGCTGATGAAGCGTACACTAGCTCAT
EST: gi|162205854|gb|FC381092.1|FC381092
EST:     GCCCTCACGAGTACCCAATTTGCAACCTGGATGCAGGACTTTGCCTCAAG                         GGATCACACGACAAGGAGGGTGTTGCGCTGATGAAGCGTACACTAGCTCAT
genomic: GCCCTCACGAGTACCCAATCTGCAACCTGGATGCAGGACTTTGCCTCAAGgtgcagcgcc ... gctactgcagGGATCACACGACAAGGAGGGTGTTGCGCTGATGAAGCGTACACTAGCTCAT
EST: gi|162205855|gb|FC381093.1|FC381093
EST:     GCCCTCACGAGTACCCAATCTGCAACCTGGATGCAGGACTTTGCCTCAAG                         GGATCACACGACAAGGAGGGTGTTGCGCTGATGAAGCGTACACTAGCTCAT
genomic: GCCCTCACGAGTACCCAATCTGCAACCTGGATGCAGGACTTTGCCTCAAGgtgcagcgcc ... gctactgcagGGATCACACGACAAGGAGGGTGTTGCGCTGATGAAGCGTACACTAGCTCAT
EST: gi|208399367|gb|DC924797.1|DC924797
EST:     GCCCTCACGAGTACCCAATCTGCAACCTGGATGCAGGACTTTGCCTCAAG                         GGATCACACGACAAGGAGGGTGTTGCGCTGATGAAGCGTACACTAGCTCAT
genomic: GCCCTCACGAGTACCCAATCTGCAACCTGGATGCAGGACTTTGCCTCAAGgtgcagcgcc ... gctactgcagGGATCACACGACAAGGAGGGTGTTGCGCTGATGAAGCGTACACTAGCTCAT
EST: gi|208399137|gb|DC916534.1|DC916534
EST:     GCCCTCACGAGTACCCAATCTGCAACCTGGATGCAGGACTTTGCCTCAAG                         GGATCACACGACAAGGAGGGTGTTGCGCTGATGAAGCGTACACTAGCTCAT
genomic: GCCCTCACGAGTACCCAATCTGCAACCTGGATGCAGGACTTTGCCTCAAGgtgcagcgcc ... gctactgcagGGATCACACGACAAGGAGGGTGTTGCGCTGATGAAGCGTACACTAGCTCAT