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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagcgtttgagtagtctcttctacattggttgcttcactattcgactaaatgggtctcgcattcatttcactgctagttaatgtgaagttttcactgaaacttatcctctactctggctgcagAATGAAGGACGGTTGACACTTCGGGACTTAAAGCGATGCAAATTATCTGGAAACTTCTTCAATATCCTTTTTAACCTCAACAAATTCGTAGCTTTTGAGA

Basic information

species Physcomitrella patens
transcript PP1S7_163V6.1
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S7_163V6.1 (Physcomitrella patens), 3'ss of exon 10
lower sequence: AT5G28900.1 (Arabidopsis thaliana), 3'ss of exon 10
--gtaagcgtttgagtagtctcttctacattggttgcttcac-tattcgactaaatgggtctcgcattca-tttcactgctagttaatgtgaa---gttttcactgaaacttatcctctactctggctgcagAATGAAGGACGGTTGACACTTCGGGACTTAAAGCGATGCAAATTATCTGGAAACTTCTTCAATATCCTTTTTAACCTCAACAAATTCGTAGCTTTTGAGA
    ||   | |   |  | | |||| | ||   |  ||    || ||    || | | |   |    || |||   | ||   |  |||||    |||||   |   | |  |  |    ||   |  ||||| ||| | |   | || || |  ||| | ||  | |  ||  | ||||||||| ||||||| ||||| ||||| |||||||||||  | || ||||| |
gttcaacaatatatctcttgttttcttctttctatatttagtatagtcacagaagtagtttgtgttcccagttttctttctgagtcttgtgattttgttttgtgtttgattgttttttatttccttccacagAACGAAAGCCATATAACGCTGCATGACCTGAAAGGCTCAAAGCTCTCTGGAAACGTCTTCAACATCCTATTTAATCTCAACAAATTTATGGCATTTGAAA

upper sequence: PP1S7_163V6.1 (Physcomitrella patens), 3'ss of exon 10
lower sequence: AT5G28850.1 (Arabidopsis thaliana), 3'ss of exon 9
--------gtaagcgtttgagtagtctctt-ctacatt--ggttgcttcactat--tcgactaaatgggtctcgcattca--tttcactgctagttaatgtgaagttttcac---tgaaacttatcctctactctggctgcagAATGAAGGACGGTTGACACTTCGGGACTTAAAGCGATGCAAATTATCTGGAAACTTCTTCAATATCCTTTTTAACCTCAACAAATTCGTAGCTTTTGAGA
         || |  | |   |  | |||| ||| |||  ||  | |  |  |   ||    || | | |   |    ||  |||   | ||   |  || ||  || ||     |   | |  |  |    ||   |  ||||| ||| | |   | || || |  ||| | ||  | |  ||  | ||||||||| ||||||| ||||||||||| || ||||||||  | || ||||| |
gttcaacaatatgtctcttgtttttttctttctatattaaggaagatatatgacagtcacagaagtagtttgggttcccagtttttctttctgactcttgcgattttgtcttgtgtttgattgttttttatttccttccacagAACGAAAGCCATATAACGCTGCATGACCTGAAAGGCTCAAAGCTCTCTGGAAACGTCTTCAACATCCTTTTTAATCTAAACAAATTTATGGCATTTGAAA
















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|162155853|gb|FC332402.1|FC332402
EST:     TTCTTTTTGAGGATATCGTTTGTCAAATGACAGATATGATCGGACCTGCT                         AATGAAGGACGGTTGACACTTCGGGACTTAAAGCGATGCANATTATCT
genomic: TTCTTTTTGAGGATATCGTTTGTCAAATGACAGATATGATCGGACCTGCTgtaagcgttt ... ctggctgcagAATGAAGGACGGTTGACACTTCGGGACTTAAAGCGATGCAAATTATCT
EST: gi|162261177|gb|FC437506.1|FC437506
EST:     TTCTTTTTGAGGATATCGTTTGTCAAATGACAGATATGATCGGACCTGCT                         AATGAAGGACGGTTGACACTTCGGGACTTAAAGCGATGCAAATTATCTGGA
genomic: TTCTTTTTGAGGATATCGTTTGTCAAATGACAGATATGATCGGACCTGCTgtaagcgttt ... ctggctgcagAATGAAGGACGGTTGACACTTCGGGACTTAAAGCGATGCAAATTATCTGGA
EST: gi|18334323|gb|BJ166340.1|BJ166340
EST:     TTCTTTTTGAGGATATCGTTTGTCAAATGACAGATATGATCGGACCTGCT                         AATGAAGGACGGTTGACACTTCGGGACTTAAAGCGATGCAAATTATCTGGA
genomic: TTCTTTTTGAGGATATCGTTTGTCAAATGACAGATATGATCGGACCTGCTgtaagcgttt ... ctggctgcagAATGAAGGACGGTTGACACTTCGGGACTTAAAGCGATGCAAATTATCTGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cactgctagttaatgtgaagttttcactgaaacttatcctctactctggctgcagAATGAAGGACGGTTGACACTTCGGGACTTAAAGCGATGCAAATTATCTGGAAACTTCTTCAATATCCTTTTTAACCTCAACAAATTCGTAGCTTTTGAGA
       agttaat  putative branch site (score: 4)
                                cttatcctctactct  putative PPT
      tagttaat  TA-rich tract