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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactgttgcaatttttttcagttaccacgtaagcgctgagctatgtgtgcttatcacaggacaaaaatgtttttgacaatatacgcacagaagttgcaagattgtattgttacagaattacaaatattatacccggttgatgttatagGGCCTACTAGGCGATGGTGGTCGTGCTGCAATTCAAACGCAAGGCTCTGTTAGCAATCCATTCGGTCCAACGTTTGTGTATGGCTATCGCAACATCGCTC

Basic information

species Physcomitrella patens
transcript PP1S58_197V6.2
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S58_197V6.1 (Physcomitrella patens), 3'ss of exon 12
lower sequence: EFJ28090 (Selaginella moellendorffii), 3'ss of exon 11
gtactgttgcaatttttttcagttaccacgtaagcgctgagctatgtgtgcttatcacaggacaaaaatgtttttgacaatatacgcacagaagttgcaagattgtattgttacagaattacaaatattatacccggttgatgttatagGGCCTACTAGGCGATGGTGGTCGTGCTGCAATTCAAACGCAAGGCTCTGTTAGCAATCCATTCGGTCCAACGTTTGTGTATGGCTATCGCAACATCGCTC
                                                                     ||||  | |     | ||   |   || | |   | || | |     ||| ||   | |  |     ||  || | | ||   ||  | || || |  || || || || ||||||||||||||||| ||||||||||| ||||| ||||| || || |||||||| || ||||||||  
---------------------------------------------------------------------gtttgaggcttagcaagctttgctttttcga---tctagtctcgagtaataacccgtgtgct--tttgtgtatctaacagCAGCTCTTGGGAGACGCCGGCCGAGCAGCCATTCAAACGCAAGGCTCGGTTAGCAATCCGTTCGGGCCAACCTTCGTCTATGGCTACCGAAACATCGCAT

upper sequence: PP1S58_197V6.1 (Physcomitrella patens), 3'ss of exon 12
lower sequence: EFJ29519 (Selaginella moellendorffii), 3'ss of exon 11
gtactgttgcaatttttttcagttaccacgtaagcgctgagctatgtgtgcttatcacaggacaaaaatgtttttgacaatatacgcacagaagttgcaagattgtattgttacagaattacaaatattatacccggttg-atgttatagGGCCTACTAGGCGATGGTGGTCGTGCTGCAATTCAAACGCAAGGCTCTGTTAGCAATCCATTCGGTCCAACGTTTGTGTATGGCTATCGCAACATCGCTC
                                                                        |||||   | |||   ||    ||||    |     |  |   || | | ||    | | |     || || | | ||   ||  | || || |  || || || || ||||||||||||||||| ||||||||||| ||||| ||||| || || |||||||| || ||||||||  
-----------------------------------------------------------------------gtttgaggct-tac---caagctttgctttttctatctagtctcgagtaataacccgtgtgcttttgtgtatctaacagCAGCTCTTGGGAGACGCCGGCCGAGCAGCCATTCAAACGCAAGGCTCGGTTAGCAATCCGTTCGGGCCAACCTTCGTCTATGGCTACCGAAACATCGCAT
















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|67701566|gb|BJ961799.1|BJ961799
EST:     GAGTGAAGTGCAG                         GGCCTACTAGGCGATGGTGGTCGTGCTGCAATTCAAACGCAAGGCTCTGTT
genomic: GAGTGAAGTGCAGgtactgttgc ... gatgttatagGGCCTACTAGGCGATGGTGGTCGTGCTGCAATTCAAACGCAAGGCTCTGTT
EST: gi|208382909|gb|DC928334.1|DC928334
EST:     ATGGAAATCAAAGGCGTATCACTGCCAACACCAAATGGAGTGAAGTGCAG                         GGCCTACTAGGCGATGGTGGTCGTGCTGCAATTCAAACGCAAGGCTCTGTT
genomic: ATGGAAATCAAAGGCGTATCACTGCCAACACCAAATGGAGTGAAGTGCAGgtactgttgc ... gatgttatagGGCCTACTAGGCGATGGTGGTCGTGCTGCAATTCAAACGCAAGGCTCTGTT
EST: gi|67726513|gb|BJ976772.1|BJ976772
EST:     ATGGAAATCAAAGGCGTATCACTGCCAACACCAAATGGAGTGAAGTGCAG                         GGCCTACTAGGCGATGGTGGTCGTGCTGCAATTCAAACGCAAGGCTCTGTT
genomic: ATGGAAATCAAAGGCGTATCACTGCCAACACCAAATGGAGTGAAGTGCAGgtactgttgc ... gatgttatagGGCCTACTAGGCGATGGTGGTCGTGCTGCAATTCAAACGCAAGGCTCTGTT
EST: gi|6167306|gb|AW145570.1|AW145570
EST:     TGGAAATCAAAGGCGTATCACTGCCAACACCAATTG-AGTTGAAGTGCAG                         GGCCTACTNG-CGATGGTGGGTCGTGCTGCAATTCAA-CGCAAGGCTCTGT
genomic: TGGAAATCAAAGGCGTATCACTGCCAACACCAAATGGAGT-GAAGTGCAGgtactgttgc ... gatgttatagGGCCTACTAGGCGATGGTGG-TCGTGCTGCAATTCAAACGCAAGGCTCTGT
EST: gi|37823222|gb|BJ581288.1|BJ581288
EST:     ATGGAAATCAAAGGCGTATCACTGCCAACACCAAATGGAGTGAAGTGCAG                         GGCCTACTAGGCGATGGTGGTCGTGCTGCAATTCAAACGCAAGGCTCTGTT
genomic: ATGGAAATCAAAGGCGTATCACTGCCAACACCAAATGGAGTGAAGTGCAGgtactgttgc ... gatgttatagGGCCTACTAGGCGATGGTGGTCGTGCTGCAATTCAAACGCAAGGCTCTGTT
EST: gi|37836886|gb|BJ594894.1|BJ594894
EST:     ATGGAAATCAAAGGCGTATCACTGCCAACACCAAATGGAGTGAAGTGCAG                         GGCCTACTAGGCGATGGTGGTCGTGCTGCAATTCAAACGCAAGGCTCTGTT
genomic: ATGGAAATCAAAGGCGTATCACTGCCAACACCAAATGGAGTGAAGTGCAGgtactgttgc ... gatgttatagGGCCTACTAGGCGATGGTGGTCGTGCTGCAATTCAAACGCAAGGCTCTGTT
EST: gi|208370963|gb|DC944338.1|DC944338
EST:     ATGGAAATCAAAGGCGTATCACTGCCAACACCAAATGGAGTGAAGTGCAG                         GGCCTACTAGGCGATGGTGGTCGTGCTGCAATTCAAACGCAAGGCTCTGTT
genomic: ATGGAAATCAAAGGCGTATCACTGCCAACACCAAATGGAGTGAAGTGCAGgtactgttgc ... gatgttatagGGCCTACTAGGCGATGGTGGTCGTGCTGCAATTCAAACGCAAGGCTCTGTT
EST: gi|162176258|gb|FC352715.1|FC352715
EST:     ATGGAAATCAAAGGCGTATCACTGCCAACACCAAATGGAGTGAAGTGCAG                         GGCCTACTAGGCGATGGTGGTCGTGCTGCAATTCAAACGCAAGGCTCTGTT
genomic: ATGGAAATCAAAGGCGTATCACTGCCAACACCAAATGGAGTGAAGTGCAGgtactgttgc ... gatgttatagGGCCTACTAGGCGATGGTGGTCGTGCTGCAATTCAAACGCAAGGCTCTGTT
EST: gi|18337725|gb|BJ169749.1|BJ169749
EST:     GGCGTATCACTGCCAACACCAAATGGAGTGAAGTGCAG                         GGCCTACTAGGCGATGGTGGTCGTGCTGCAATTCAAACGCAAGGCTCTGTT
genomic: GGCGTATCACTGCCAACACCAAATGGAGTGAAGTGCAGgtactgttgc ... gatgttatagGGCCTACTAGGCGATGGTGGTCGTGCTGCAATTCAAACGCAAGGCTCTGTT
EST: gi|37842901|gb|BJ600909.1|BJ600909
EST:     ATGGAAATCAAAGGCGTATCACTGCCAACACCAAATGGAGTGAAGTGCAG                         GGCCTACTAGGCGATGGTGGTCGTGCTGCAATTCAAACGCAAGGCTCTGTT
genomic: ATGGAAATCAAAGGCGTATCACTGCCAACACCAAATGGAGTGAAGTGCAGgtactgttgc ... gatgttatagGGCCTACTAGGCGATGGTGGTCGTGCTGCAATTCAAACGCAAGGCTCTGTT
EST: gi|162155578|gb|FC331529.1|FC331529
EST:     ATGGAAATCAAAGGCGTATCACTGCCAACACCAAATGGAGTGAAGTGCAG                         GGCCTACTAGGCGATGGTGGTCGTGCTGCAATTCAAACGCAAGGCTCTGTT
genomic: ATGGAAATCAAAGGCGTATCACTGCCAACACCAAATGGAGTGAAGTGCAGgtactgttgc ... gatgttatagGGCCTACTAGGCGATGGTGGTCGTGCTGCAATTCAAACGCAAGGCTCTGTT
EST: gi|37821349|gb|BJ579415.1|BJ579415
EST:     ATGGAAATCAAAGGCGTATCACTGCCAACACCAAATGGAGTGAAGTGCAG                         GGCCTACTAGGCGATGGTGGTCGTGCTGCAATTCAAACGCAAGGCTCTGTT
genomic: ATGGAAATCAAAGGCGTATCACTGCCAACACCAAATGGAGTGAAGTGCAGgtactgttgc ... gatgttatagGGCCTACTAGGCGATGGTGGTCGTGCTGCAATTCAAACGCAAGGCTCTGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgcaagattgtattgttacagaattacaaatattatacccggttgatgttatagGGCCTACTAGGCGATGGTGGTCGTGCTGCAATTCAAACGCAAGGCTCTGTTAGCAATCCATTCGGTCCAACGTTTGTGTATGGCTATCGCAACATCGCTC
                                         ggttgat  putative branch site (score: 5)
           tattgttacagaatta  TA-rich tract