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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gatgtttactgttcgagttcaaattttggaaaaaaataattatataattcaacatgcattgtctctacttgtattaattttaaaattgatatttttgcagTGGAGTCCAACAGAAGCGGATGTTTTTGCCTCTTGTTCGGTGGACGGAACCTTAAGAATCTGGGATACACGTAATCGTCAAGGGTCAGCAATCTCGATCA

Basic information

species Physcomitrella patens
transcript PP1S46_317V6.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S46_317V6.1 (Physcomitrella patens), 3'ss of exon 7
lower sequence: LOC_Os11g03990.1 (Oryza sativa), 3'ss of exon 8
gatgtttactgttcgagttcaaattttggaaaaaaataattatataattcaacatgcattgtctctacttgtattaattttaaaattgatatttttgcagTGGAGTCCAACAGAAGCGGATGTTTTTGCCTCTTGTTCGGTGGACGGAACCTTAAGAATCTGGGATACACGTAATCGTCAAGGGTCAGCAATCTCGATCA
           | | | |  ||   |   | | |  |  |  |    |  |  |  |      | |  || | | ||   |       |||||||||||||||||||| |||||||| ||  | |||||||||||||| |  ||| ||||  ||   |||||||||| ||| |   |  |     |    || ||  | |
--------gcatgccactgaaagcat---atatacttcttggtgctctctagaacactgaacatttgattatctcaaacatcttgactatatttttgcagTGGAGTCCCACAGAAGCCGACATATTTGCCTCTTGTTCAGCCGACAGAACAATATCTATCTGGGATATACGGACAGGGAAGAAACCTTGTATTTCTGTTA

upper sequence: PP1S46_317V6.1 (Physcomitrella patens), 3'ss of exon 7
lower sequence: LOC_Os12g03822.1 (Oryza sativa), 3'ss of exon 8
gatgtttactgttcgagttcaaattttggaaaaaaataattatataattcaacatgcattgtctctacttgtattaattttaaaattgatatttttgcagTGGAGTCCAACAGAAGCGGATGTTTTTGCCTCTTGTTCGGTGGACGGAACCTTAAGAATCTGGGATACACGTAATCGTCAAGGGTCAGCAATCTCGATCA
           | | | |  ||   |   | | |  |  |  |    |  |     |      | |  || | | ||   |       |||||||||||||||||||| |||||||| ||  | |||||||||||||| |  ||| ||||  ||   |||||||||| ||| |   |  |     |    || ||  | |
--------gcatgccactgaaagcat---atatacttcttggtgctctctagagcactgaacgtttgattatctcaaacatcttgactatatttttgcagTGGAGTCCCACAGAAGCCGACATATTTGCCTCTTGTTCAGCCGACAGAACAATATCTATCTGGGATATACGGACAGGGAAGAAACCTTGTATTTCTGTTA
















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|162167970|gb|FC344908.1|FC344908
EST:     TTGAAAAGACTCCATACACGGGTCACTCTGCTAGCGTTGAGGATCTGCAG                         TGGAGTCCAACAGAAGCGGATGTTTTTGCCTCTTGTTCGGTGGACGGAACC
genomic: TTGAAAAGACTCCATACACGGGTCACTCTGCTAGCGTTGAGGATCTGCAGgtattgcaga ... atttttgcagTGGAGTCCAACAGAAGCGGATGTTTTTGCCTCTTGTTCGGTGGACGGAACC
EST: gi|37826218|gb|BJ584230.1|BJ584230
EST:     TTGAAAAGACTCCATACACGGGTCACTCTGCTAGCGTTGAGGATCTGCAG                         TGGAGTCCAACAGAAGCGGATGTTTTTGCCTCTTGTTCGGTGGACGGAACC
genomic: TTGAAAAGACTCCATACACGGGTCACTCTGCTAGCGTTGAGGATCTGCAGgtattgcaga ... atttttgcagTGGAGTCCAACAGAAGCGGATGTTTTTGCCTCTTGTTCGGTGGACGGAACC
EST: gi|208384348|gb|DC928099.1|DC928099
EST:     TTGAAAAGACTCCATACACGGGTCACTCTGCTAGCGTTGAGGATCTGCAG                         TGGAGTCCAACAGAAGCGGATGTTTTTGCCTCTTGTTCGGTGGACGGAACC
genomic: TTGAAAAGACTCCATACACGGGTCACTCTGCTAGCGTTGAGGATCTGCAGgtattgcaga ... atttttgcagTGGAGTCCAACAGAAGCGGATGTTTTTGCCTCTTGTTCGGTGGACGGAACC
EST: gi|208370104|gb|DC951731.1|DC951731
EST:     TTGAAAAGACTCCATACACGGGTCACTCTGCTAGCGTTGAGGATCTGCAG                         TGGAGTCCAACAGAAGCGGATGTTTTTGCCTCTTGTTCGGTGGACGGAACC
genomic: TTGAAAAGACTCCATACACGGGTCACTCTGCTAGCGTTGAGGATCTGCAGgtattgcaga ... atttttgcagTGGAGTCCAACAGAAGCGGATGTTTTTGCCTCTTGTTCGGTGGACGGAACC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aattcaacatgcattgtctctacttgtattaattttaaaattgatatttttgcagTGGAGTCCAACAGAAGCGGATGTTTTTGCCTCTTGTTCGGTGGACGGAACCTTAAGAATCTGGGATACACGTAATCGTCAAGGGTCAGCAATCTCGATCA
                                            tattttt  CT-rich tract
                tctctacttgtattaa  TA-rich tract