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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAGTATGAGGGCTACAAAGATGACCCTACTGTTCCAAATGATTCCGTCACTCCTACTTTTGCATCTCTTGTTCTTCGCATCAACAACGAACGGTGGGATGgtatgcatttttgaactgaacacttgctttcttacaacgcttcttttgcgtgatagatttttttatttttatttatttattttattttttatgtgaagatctggatttaactgtacttgatcttttttttaacttgatgattccag

Basic information

species Physcomitrella patens
transcript PP1S222_130V6.2
intron # 11
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S222_130V6.3 (Physcomitrella patens), 5'ss of exon 11
lower sequence: LOC_Os02g38840.2 (Oryza sativa), 5'ss of exon 11
CAGTATGAGGGCTACAAAGATGACCCTACTGTTCCAAATGATTCCGTCACTCCTACTTTTGCATCTCTTGTTCTTCGCATCAACAACGAACGGTGGGATGgtatg-----catttttgaac-tgaacacttgctttcttacaacgcttcttttgcgtgatagatttttttatttttatttatttattttattttttatgtgaagatctggatttaactgtacttgatcttttttttaacttgatgattccag
|| ||||| |||||||| |||||| |||| || ||| |||| |||  ||| ||||||||||||||||||||  |  |  | ||||| ||| | ||||| |||||      ||  ||  ||| |  | |  | |  | ||   | |   |||||     | | || |   | ||   | | |  |   || ||||  ||   |                                                  
CAATATGATGGCTACAAGGATGACTCTACGGTACCAGATGACTCCAACACACCTACTTTTGCATCTCTTGTATTGAGGGTAAACAATGAAAGATGGGAAGgtatatgttacaccttacaacatacagatatacagtattttgaagtcacttttaaacaa-atatctgcattttccaactgaactgcctt-ttttcgatacaa--------------------------------------------------

upper sequence: PP1S222_130V6.3 (Physcomitrella patens), 5'ss of exon 11
lower sequence: GRMZM2G031107_T02 (Zea mays), 5'ss of exon 11
CAGTATGAGGGCTACAAAGATGACCCTACTGTTCCAAATGATTCCGTCACTCCTACTTTTGCATCTCTTGTTCTTCGCATCAACAACGAACGGTGGGATGgtatgcatttttgaactgaacacttgctttct---tacaacgcttc--ttttgcgtgataga-tttttttatttttat-------ttattt--attttattttttatgtgaagatc-tggatttaactgtacttgatcttttttttaacttgatgattccag---------------
|| ||||| |||||||| |||||||||||||| ||| |||| |||  ||| ||||||||||||||| |||| ||  |  |  |||||||| | ||||| ||||   |||  |  | ||| |  |||||  |    |  | | || |  | || | | || ||   |   |||||||||       | |||   | | |   |  ||||  |   || |   | | |   |     || ||| || |    || | | | ||                
CAATATGATGGCTACAAGGATGACCCTACTGTGCCAGATGACTCCAACACCCCTACTTTTGCATCTGTTGTACTGAGGGTACACAACGAAAGATGGGAGGgtaaatattactcga-tgagccattgctcccaatgtctagctctgcagtcttccttaatcgaacctccatatttttataaccggataattcccactctgcgtcatatgccagtgtcatacttctgaacat-tgcaatgtttattctttggtgctaaatgcaaatgactgtcgcatag
















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|7067204|gb|AW497059.1|AW497059
EST:     TCCTACTTTTGCATCTCTTGTTCTTCGCATCAACAACGAACGGTGGGATG                         GGGTACCTTTCATTATGAAGGCTGGGAAATCTTTAGATACTCGAAAAGCTG
genomic: TCCTACTTTTGCATCTCTTGTTCTTCGCATCAACAACGAACGGTGGGATGgtatgcattt ... atgattccagGGGTACCTTTCATTATGAAGGCTGGGAAATCTTTAGATACTCGAAAAGCTG
EST: gi|162220369|gb|FC395737.1|FC395737
EST:     AACACCGAACGGTGGGATG                         GGGTACCTTTCATTATGAAGGCTGGGAAATCTTTAGATACTCGAAAAGCTG
genomic: AACAACGAACGGTGGGATGgtatgcattt ... atgattccagGGGTACCTTTCATTATGAAGGCTGGGAAATCTTTAGATACTCGAAAAGCTG
EST: gi|162153066|gb|FC330096.1|FC330096
EST:     TCCTACTTTTGCATCTCTTGTTCTTCGCATTAACAACGAACGGTGGGATG                         GGGTACCTTTCATTATGAAGGCTGGGAAATCTTTAGATACTCGAAAAGCTG
genomic: TCCTACTTTTGCATCTCTTGTTCTTCGCATCAACAACGAACGGTGGGATGgtatgcattt ... atgattccagGGGTACCTTTCATTATGAAGGCTGGGAAATCTTTAGATACTCGAAAAGCTG
EST: gi|162165174|gb|FC341676.1|FC341676
EST:     TCCTACTTTTGCATCTCTTGTTCTTCGCATTAACAACGAACGGTGGGATG                         GGGTACCTTTCATTATGAAGGCTGGGAAATCTTTAGATACTCGAAAAGCTG
genomic: TCCTACTTTTGCATCTCTTGTTCTTCGCATCAACAACGAACGGTGGGATGgtatgcattt ... atgattccagGGGTACCTTTCATTATGAAGGCTGGGAAATCTTTAGATACTCGAAAAGCTG
EST: gi|162153065|gb|FC330095.1|FC330095
EST:     CGCATTAACAACGAACGGTGGGATG                         GGGTACTTTTCATTATGAAGGCTGGGAAATCTTNAGATACTCGAAAAGCTG
genomic: CGCATCAACAACGAACGGTGGGATGgtatgcattt ... atgattccagGGGTACCTTTCATTATGAAGGCTGGGAAATCTTTAGATACTCGAAAAGCTG
EST: gi|162259274|gb|FC435671.1|FC435671
EST:     CATCAACAACGAACGGTGGGATG                         GGGTACCTTTCATTATGAAGGCTGGGAAATCTTTAGATACTCGAAAAGCTG
genomic: CATCAACAACGAACGGTGGGATGgtatgcattt ... atgattccagGGGTACCTTTCATTATGAAGGCTGGGAAATCTTTAGATACTCGAAAAGCTG
EST: gi|162263641|gb|FC440125.1|FC440125
EST:     TCCTACTTTTGCATCTCTTGTTCTTCGCATCAACAACGAACGGTGGGATG                         GGGTACCTTTCATTATGAAGGCTGGGAAATCTTTAGATACTCGAAAAGCTG
genomic: TCCTACTTTTGCATCTCTTGTTCTTCGCATCAACAACGAACGGTGGGATGgtatgcattt ... atgattccagGGGTACCTTTCATTATGAAGGCTGGGAAATCTTTAGATACTCGAAAAGCTG
EST: gi|162259275|gb|FC435672.1|FC435672
EST:     TCCTACTTTTGCATCTCTTGTTCTTCGCATCAACAACGAACGGTGGGATG                         GGGTACCTTTCATTATGAAGGCTGGGAAATCTTTAGATACTCGAAAAGCTG
genomic: TCCTACTTTTGCATCTCTTGTTCTTCGCATCAACAACGAACGGTGGGATGgtatgcattt ... atgattccagGGGTACCTTTCATTATGAAGGCTGGGAAATCTTTAGATACTCGAAAAGCTG
EST: gi|162276852|gb|FC452534.1|FC452534
EST:     TCCTACTTTTGCATCTCTTGTTCTTCGCATCAACAACGAACGGTGGGATG                         GGGTACCTTTCATTATGAAGGCTGGGAAATCTTTAGATACTCGAAAAGCTG
genomic: TCCTACTTTTGCATCTCTTGTTCTTCGCATCAACAACGAACGGTGGGATGgtatgcattt ... atgattccagGGGTACCTTTCATTATGAAGGCTGGGAAATCTTTAGATACTCGAAAAGCTG
EST: gi|67578605|gb|BJ950772.1|BJ950772
EST:     TCCTACTTTTGCATCTCTTGTTCTTCGCATCAACAACGAACGGTGGGATG                         GGGTACCTTTCATTATGAAGGCTGGGAAATCTTTAGATACTCGAAAAGCTG
genomic: TCCTACTTTTGCATCTCTTGTTCTTCGCATCAACAACGAACGGTGGGATGgtatgcattt ... atgattccagGGGTACCTTTCATTATGAAGGCTGGGAAATCTTTAGATACTCGAAAAGCTG