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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCTGTATGGCTTCGCTGTCTGCTATGATTCAGCTAGAACTTCCTCACATCAATGTGCTGACGAAGGTTGATCTTCTCCCCAACAAGCGCGACATTGATAGgtaaagttgtgttttcaaacgcttgttgtgcctagtgttgactagtttattttacagtaacctcttccaatgtgtgggttgagcaccatcaacagaatcg...

Basic information

species Physcomitrella patens
transcript PP1S234_26V6.3
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S234_26V6.2 (Physcomitrella patens), 5'ss of exon 7
lower sequence: LOC_Os03g50620.2 (Oryza sativa), 5'ss of exon 6
GCTGTATGGCTTCGCTGTCTGCTATGATTCAGCTAGAACTTCCTCACATCAATGTGCTGACGAAGGTTGATCTTCTCCCCAACAAGCGCGACATTGATAGgtaaagttgtgttttcaaacgcttgttgtgcctagtgttgactagtttattttacagtaacctcttccaatgtgtgggttgagcaccatcaacagaatcg
| || |||||||| || ||||| ||||||||||| ||||||||||| |||||  | ||  | ||| | || ||  || |||||||    ||  | ||   |||   || | |  |    |  || ||      ||  |  || |   |  |||  | |||  ||||    | | | |                       
GTTGCATGGCTTCTCTTTCTGCCATGATTCAGCTTGAACTTCCTCATATCAACATTCTTTCAAAGATGGACCTGGTCTCCAACAAAAAAGATGTGGAAGAgtatgtttatttcatttctcatttatttaa---agattcaaccatcctgctttgtattaatatcttgatgtttctag-----------------------

upper sequence: PP1S234_26V6.2 (Physcomitrella patens), 5'ss of exon 7
lower sequence: LOC_Os03g21914.1 (Oryza sativa), 5'ss of exon 6
GCTGTATGGCTTCGCTGTCTGCTATGATTCAGCTAGAACTTCCTCACATCAATGTGCTGACGAAGGTTGATCTTCTCCCCAACAAGCGCGACATTGATAGgtaaagttgtgttttcaaacgcttgttgtgcctagtgttgactagtttattttacagtaacctcttccaatgtgtgggttgagcaccatcaacagaatcg
| || |||||||| || ||||| ||||||||||| ||||||||||| |||||  | ||  | ||| | || ||  || |||||||    ||  | ||   |||   || |   ||||        || |    ||  |  || |   |  |||  | ||| |||||    | |    |                      
GTTGCATGGCTTCTCTTTCTGCCATGATTCAGCTTGAACTTCCTCATATCAACATTCTTTCAAAGATGGACCTGGTCGCCAACAAAAAGGATGTGGAAGAgtatgtttat---ttcatttctcctttatttaaagattcaaccatcctgctttgtattaatctcttgatgttttctag----------------------

upper sequence: PP1S234_26V6.2 (Physcomitrella patens), 5'ss of exon 7
lower sequence: GRMZM2G131324_T01 (Zea mays), 5'ss of exon 7
GCTGTATGGCTTCGCTGTCTGCTATGATTCAGCTAGAACTTCCTCACATCAATGTGCTGACGAAGGTTGATCTTCTCCCCAACAAGCGCGACATTGATAGgta-aagttgtgttttcaaacgcttgt-tgtgcctagtgt------tgactagttta-ttttacagtaacctcttccaatgtgtgggttga-gcaccatcaacagaatcg
| || |||||||| || ||||||||||||||||| ||||||||||| |||||  | ||  | ||| | |||||  || |||||||    ||  | ||   |||    || | | ||    | ||||  | ||  |  | |      |  || |  || || || ||       || |  ||| ||  || | |  |||    |   |   
GTTGCATGGCTTCTCTATCTGCTATGATTCAGCTTGAACTTCCTCATATCAACATCCTTTCAAAGATGGATCTGGTCTCCAACAAAAAAGATGTAGAAGAgtatgttttatttctttcctctcttgcatatgttttatttctttcctcccttgcatagttctaaaggtttgaatttccttgtctgtattaatgttccaatggctctag--

upper sequence: PP1S234_26V6.2 (Physcomitrella patens), 5'ss of exon 7
lower sequence: GRMZM2G154716_T01 (Zea mays), 5'ss of exon 9
GCTGTATGGCTTCGCTGTCTGCTATGATTCAGCTAGAACTTCCTCACATCAATGTGCTGACGAAGGTTGATCTTCTCCCCAACAAGCGCGACATTGATAGgta-aagttgtgttttcaaacgcttg--------ttgtgcctagtgttgactagtttattttacagtaacctcttccaatgtgtgggttga-gcaccatcaacagaatcg
| || |||||||| || ||||||||||||||||| ||||||||||| |||||  | ||  | ||| | |||||  || |||||||    ||  | ||   |||    || | | ||    | ||||        || |  ||    |    |   |  || || ||       || |  ||| ||  || | |  |||    |   |   
GTTGCATGGCTTCTCTATCTGCTATGATTCAGCTTGAACTTCCTCATATCAACATCCTTTCAAAGATGGATCTGATCTCCAACAAAAAAGATGTAGAAGAgtatgttttatttctttcctctcttgcaaatgttttatttctttcctcccttgcatagttctaaaggtttgaatttccttgtttgtattaatgttccaatggctctag--

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|67695764|gb|BJ955997.1|BJ955997
EST:     AATGTGCTGACGAAGGTTGATCTTCTCCCCAACAAGCGCGACATTGATAG                         GTTCTTGGATCCCGATGTTCGGCTCCTTTTCGATGACTTGAATGCCCACAT
genomic: AATGTGCTGACGAAGGTTGATCTTCTCCCCAACAAGCGCGACATTGATAGgtaaagttgt ... tatgagtcagGTTCTTGGATCCCGATGTTCGGCTCCTTTTCGATGACTTGAATGCCCACAT
EST: gi|37829705|gb|BJ587717.1|BJ587717
EST:     TCCCCANCAAGCGCGACATTGATAG                         GTTCTNGGATCCCGATGTTCGGCTCCTTTTCGATTACTTGAATGCCCACAT
genomic: TCCCCAACAAGCGCGACATTGATAGgtaaagttgt ... tatgagtcagGTTCTTGGATCCCGATGTTCGGCTCCTTTTCGATGACTTGAATGCCCACAT
EST: gi|37849748|gb|BJ607756.1|BJ607756
EST:     CAAGCGCGACATTGATAG                         GTTCTTGGATCCCGATGTTCGGCTCCTTTTCGATGACTTGAATGCCCACAT
genomic: CAAGCGCGACATTGATAGgtaaagttgt ... tatgagtcagGTTCTTGGATCCCGATGTTCGGCTCCTTTTCGATGACTTGAATGCCCACAT
EST: gi|100399107|gb|BY954203.1|BY954203
EST:     AATGTGCTGACGAAGGTTGATCTTCTCCCCAACAAGCGCGACATTGATAG                         GGTCTTGGATCCCGATGTTCGGCTCCTTTTCGATGACTTGNATGCCCACAT
genomic: AATGTGCTGACGAAGGTTGATCTTCTCCCCAACAAGCGCGACATTGATAGgtaaagttgt ... tatgagtcagGTTCTTGGATCCCGATGTTCGGCTCCTTTTCGATGACTTGAATGCCCACAT