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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gctatatcatagtctgctttcttgaacaattttgaacagttgacatcaggaacttgttgagaagattttttaggagagtattaacgacgattctctgcagGCACTGTCTAAGCGGATACATTACGGCAAGTTCGTGGCAGAAGCGAAATTCACTGAGAATCCTGCGAAATTCGAGTGCCACATTAGGGCGCAG

Basic information

species Physcomitrella patens
transcript PP1S142_106V6.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S142_106V6.1 (Physcomitrella patens), 3'ss of exon 8
lower sequence: EDP00124 (Chlamydomonas reinhardtii), 3'ss of exon 5
---------------------------------------------------------------gctatatcatagtctgctttcttgaa-caattttga-----acagttga-catcaggaacttgttgagaagattttttaggagagtattaacgacgattctctgcagGCACTGTCTAAGCGGATACATTACGGCAAGTTCGTGGCAGAAGCGAAATTCACTGAGAATCCTGCGAAATTCGAGTGCCACATTAGGGCGCAG
                                                               | |   |    |    | |    ||| | ||  ||      |||   |  | ||| |  |           ||   | |     |   | ||  ||   | |  ||||| ||||| ||||||||||| ||||||||||||||||| || || ||||||                                          
gtgggcgcgggtgtgggagcgggaggtggggtaaggtgtctgagtggtagggaagcgcactgggttgcgtgggggcacacgtcggcgaagcgatgctgtggggcacaacgggtcttcacgcccccccccttgtaatccctaattgccgacctgacc-cggcccgcgccagGCGCTGTCGAAGCGGATACACTACGGCAAGTTCGTGGCGGAGGCCAAATTCCT----------------------------------------
















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|162236155|gb|FC411963.1|FC411963
EST:     ATGATGGCAATTATGGTTCCGCTTCTATGTGCGATGTACTCTGCCTCCAG                         GCACTGTCTAAGCGGATACATTACGGCAAGTTCGTGGCAGAAGCGAAATTC
genomic: ATGATGGCAATTATGGTTCCGCTTCTATGTGCGATGTACTCTGCCTCCAGgtactatgct ... ttctctgcagGCACTGTCTAAGCGGATACATTACGGCAAGTTCGTGGCAGAAGCGAAATTC
EST: gi|162236154|gb|FC411962.1|FC411962
EST:     ATGATGGCAATTATGGTTCCGCTTCTATGTGCGATGTACTCTGCCTCCAG                         GCACTGTCTAAGCGGATACATTACGGCAAGTTCGTGGCAGAAGCGAAATTC
genomic: ATGATGGCAATTATGGTTCCGCTTCTATGTGCGATGTACTCTGCCTCCAGgtactatgct ... ttctctgcagGCACTGTCTAAGCGGATACATTACGGCAAGTTCGTGGCAGAAGCGAAATTC
EST: gi|162242780|gb|FC417550.1|FC417550
EST:     ATGATGGCAATTATGGTTCCGCTTCTATGTGCGATGTACTCTGCCTCCAG                         GCACTGTCTAAGCGGATACATTACGGCAAGTTCGTGGCAGAAGCGAAATTC
genomic: ATGATGGCAATTATGGTTCCGCTTCTATGTGCGATGTACTCTGCCTCCAGgtactatgct ... ttctctgcagGCACTGTCTAAGCGGATACATTACGGCAAGTTCGTGGCAGAAGCGAAATTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcaggaacttgttgagaagattttttaggagagtattaacgacgattctctgcagGCACTGTCTAAGCGGATACATTACGGCAAGTTCGTGGCAGAAGCGAAATTCACTGAGAATCCTGCGAAATTCGAGTGCCACATTAGGGCGCAG
                                 tattaac  putative branch site (score: 1)
                                             ttctctgc  putative PPT
                aagatttttta  TA-rich tract