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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGAGGGGATGGCATTCAAAGTTCTGCAGTGGTATTTGTGTCGCATGGAAGGATGGTTTGCAGCCGACGCAGACAACATCTCCGTTCAAAGTTGGGACGAGgtaatacattgtggtgattttgtgagtactggtagaagttgattttgtattgccctgtgtggttgatgcatttgaacttatgccatcgatggctacttgtcatccaattttatttgcctgggttggcgagtttgtttgcagttgtgggcaagagtagcaactttggtttggttcgttttacag

Basic information

species Physcomitrella patens
transcript PP1S24_237V6.3
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S24_237V6.3 (Physcomitrella patens), 5'ss of exon 8
lower sequence: LOC_Os04g53190.1 (Oryza sativa), 5'ss of exon 8
AGAGGGGATGGCATTCAAAGTTCTGCAGTGGTATTTGTGTCGCATGGAAGGATGGTTTGCAGCCGACGCAGACAACATCTCCGTTCAAAGTTGGGACGAGgtaatacattgtggtgattttgtgagtactggtagaagttgattttgtattgccctgtgtggttgatgcatttgaacttatgccatcgatggctacttgtcatccaattttatttgcctgggttggcgagtttgtttgcagttgtgggcaagagtagcaactttggtttggttcgttttacag
||| ||||| ||     | ||||| |||||||||||||| ||||||||||| ||||||||  | || || |||   |||||  ||||  |||||||| |||||  || |||    | |  ||    ||   |    | |||    | | |||| |        ||||| | |    ||  |    | ||| ||||  | ||||    |  || |   ||| |   ||                                                        
AGAAGGGATTGCTCATGATGTTCTTCAGTGGTATTTGTGCCGCATGGAAGGTTGGTTTGCTACTGATGCGGACGCAATCTCTCTTCAGGGTTGGGACCAGgtaggactttg----gttcctg---atatcagctacaattgccaatattttgctca-------tgatgtactcatgctagt----ttgattgctatgtctcatgt--tcgtactgtgctgtgggtgcag------------------------------------------------------

upper sequence: PP1S24_237V6.3 (Physcomitrella patens), 5'ss of exon 8
lower sequence: AT3G59050.1 (Arabidopsis thaliana), 5'ss of exon 6
AGAGGGGATGGCATTCAAAGTTCTGCAGTGGTATTTGTGTCGCATGGAAGGATGGTTTGCAGCCGACGCAGACAACATCTCCGTTCAAAGTTGGGACGAGgtaatacattgtggtgattttgtgagtactggtagaagttgattttgtattgccctgtgtggttgatgcatttgaacttatgccatcgatggctacttgtcatccaattttatttgcctgggttggcgagtttgtttgcagttgtgggcaagagtagcaactttggtttggttcgttttacag
 |||||  | ||    || || || |||||||| ||||| |||||||||||||||||||| || || || || | |||||| |   |  |||||||  |||| |   | | |      | |||  || || |    ||| | |   ||||  ||| || | || |||   ||   | ||    |||  |  |                                                                                           
GGAGGGACTTGCCCATAATGTGCTTCAGTGGTACTTGTGCCGCATGGAAGGATGGTTTGCTGCTGATGCTGAAACCATCTCGGCAAAGTGTTGGGATCAGgttagtaact-taacttctatgtctgtcctcggtttagtggttgaggtatgtccccgtttagt-gatttgtt---aattgaaacattcacag-------------------------------------------------------------------------------------------
















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|162175602|gb|FC351813.1|FC351813
EST:     GATGGTTTGCAGCCGACGCAGACAACATCTCCGTTCAAAGTTGGGACGAG                         GAGGAGTTGCTTCAAGGTGGGCACGGTTTGATGGTGAAGGGTTATGAGCCC
genomic: GATGGTTTGCAGCCGACGCAGACAACATCTCCGTTCAAAGTTGGGACGAGgtaatacatt ... cgttttacagGAGGAGTTGCTTCAAGGTGGGCACGGTTTGATGGTGAAGGGTTATGAGCCC
EST: gi|162184634|gb|FC360832.1|FC360832
EST:     GATGGTTTGCAGCCGACGCAGACAACATCTCCGTTCAAAGTTGGGACGAG                         GAGGAGTTGCTTCAAGGTGGGCACGGTTTGATGGTGAAGGGTTATGAGCCC
genomic: GATGGTTTGCAGCCGACGCAGACAACATCTCCGTTCAAAGTTGGGACGAGgtaatacatt ... cgttttacagGAGGAGTTGCTTCAAGGTGGGCACGGTTTGATGGTGAAGGGTTATGAGCCC
EST: gi|162175629|gb|FC351827.1|FC351827
EST:     GATGGTTTGCAGCCGACGCAGACAACATCTCCGTTCAAAGTTGGGACGAG                         GAGGAGTTGCTTCAAGGTGGGCACGGTTTGATGGTGAAGGGTTATGAGCCC
genomic: GATGGTTTGCAGCCGACGCAGACAACATCTCCGTTCAAAGTTGGGACGAGgtaatacatt ... cgttttacagGAGGAGTTGCTTCAAGGTGGGCACGGTTTGATGGTGAAGGGTTATGAGCCC
EST: gi|162222228|gb|FC397664.1|FC397664
EST:     GATGGTTTGCAGCCGACGCAGACAACATCTCCGTTCAAAGTTGGGACGAG                         GAGGAGTTGCTTCAAGGTGGGCACGGTTTGATGGTGAAGGGTTATGAGCCC
genomic: GATGGTTTGCAGCCGACGCAGACAACATCTCCGTTCAAAGTTGGGACGAGgtaatacatt ... cgttttacagGAGGAGTTGCTTCAAGGTGGGCACGGTTTGATGGTGAAGGGTTATGAGCCC
EST: gi|162243386|gb|FC417087.1|FC417087
EST:     GATGGTTTGCAGCCGACGCAGACAACATCTCCGTTCAAAGTTGGGACGAG                         GAGGAGTTGCTTCAAGGTGGGCACGGTTTGATGGTGAAGGGTTATGAGCCC
genomic: GATGGTTTGCAGCCGACGCAGACAACATCTCCGTTCAAAGTTGGGACGAGgtaatacatt ... cgttttacagGAGGAGTTGCTTCAAGGTGGGCACGGTTTGATGGTGAAGGGTTATGAGCCC