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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCGTTTCGATACGTGGAGCCGGTTTGTTGAACGCAGTGTGGCTTATCAGCCGTGGATATGGACATCTGGAAACCATGAGATTGATTATGTCCCTGAAATTgtaagtattgtcatgaaattacttctaaggtcaattgctacagctgtattaagttctacctttggtaatgtaacacgattcaaggtattaatgaaatagtgagattcatggtttgttttgtttctcag

Basic information

species Physcomitrella patens
transcript PP1S235_62V6.2
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S235_62V6.2 (Physcomitrella patens), 5'ss of exon 5
lower sequence: GLYMA09G36360.1 (Glycine max), 5'ss of exon 4
CCGTTTCGATACGTGGAGCCGGTTTGTTGAACGCAGTGTGGCTTATCAGCCGTGGATATGGACATCTGGAAACCATGAGATTGATTATGTCCCTGAAATTgtaagtattgtcatga-aattacttcta----aggtcaattgctacag-----ctgtattaagttctacctttggtaatgtaacacga--ttcaaggtat-taatgaaatagtgagattcatggtttgttttgtttctcag----------------------
  | |  ||| | ||| |  |||||   ||| | ||||| |||||||| || |||||||||||  | ||||||||||| ||||||| || ||| |||||||||||  || |||| | ||||   | ||       | || |     ||      |  |||   ||||   ||    |||| |        |||  |  ||  | |    ||||   | |||| ||   |   |||| | |                       
TAGGTGGGATTCTTGGGGAAGGTTTACAGAAAGGAGTGTTGCTTATCAACCATGGATATGGACTGCAGGAAACCATGAAATTGATTTTGCCCCAGAAATTgtaagc-ttctcataagaattgactttattttgttttaactatctgagaaacttttcattcttttcttttttcaacaatgaattctagccttcgtgtaatgcattttcctagtccaaatcatagtaaataaagtttttaacatggatccctgctttgttgtag

upper sequence: PP1S235_62V6.2 (Physcomitrella patens), 5'ss of exon 5
lower sequence: GLYMA12G01000.1 (Glycine max), 5'ss of exon 4
CCGTTTCGATACGTGGAGCCGGTTTGTTGAACGCAGTGTGGCTTATCAGCCGTGGATATGGACATCTGGAAACCATGAGATTGATTATGTCCCTGAAATTgtaagtattgtcatgaaattacttctaaggtcaattgctacagctgtattaagttctacctttggtaatgtaacacgattcaaggtattaatgaaatagtg-agattcatggtttgttttgtttctcag----------------------------------
  | |  ||| | ||| |  |||||   ||| | ||||| |||||||| || |||||||||||  | ||||||||||| ||||||| ||  || |||||||||||  || |||| | | |     | |  |   ||     | |||    |  ||  |   ||     | |   || ||  |   ||    |    || || |  ||| | ||     ||  |    ||                                  
TAGGTGGGATTCTTGGGGAAGGTTTACAGAAAGGAGTGTTGCTTATCAACCATGGATATGGACTGCAGGAAACCATGAAATTGATTTTGCTCCAGAAATTgtaagc-ttctcataagaattgactttattttgttttaactatctgagaaacttttcattcttttattttttcaaccataaattctaaccctcgtgtaatgcattttcctagtccaaattagtaagaagtaagtttttaacatggatcactgctttgttgtag

upper sequence: PP1S235_62V6.2 (Physcomitrella patens), 5'ss of exon 5
lower sequence: Vv03s0038g00230.t01 (Vitis vinifera), 5'ss of exon 4
CCGTTTCGATACGTGGAGCCGGTTTGTTGAACGCAGTGTGGCTTATCAGCCGTGGATATGGACATCTGGAAACCATGAGATTGATTATGTCCCTGAAATTgtaagtattgtcatgaaattacttctaaggtcaattgctacagctgtattaagttctacctttggtaatgtaacacgattcaaggtattaatgaaatagtgagattcatggtttgttttgtttctcag
  | |  ||||| ||| |  ||||   |||  | |||   |||||||| || |||||||||||  | ||||||||||||||||||| ||| |||||||||||||| |||   |  | |||  ||| | | |  |  ||   | || |||      ||   |||  | || |||     ||  |  |  ||||    |      ||                       
TAGGTGGGATACATGGGGAAGGTTCACTGAGAGAAGTACTGCTTATCAACCTTGGATATGGACTGCAGGAAACCATGAGATTGATTTTGTTCCTGAAATTgtaagcatttctaacatatt--ttcaatgatggaaagcagtatctttatg-----ctttttttattgatataatgt--tttgacatggtaatttgttccatcaatctgc-------------------

upper sequence: PP1S235_62V6.2 (Physcomitrella patens), 5'ss of exon 5
lower sequence: Vv03s0038g00250.t01 (Vitis vinifera), 5'ss of exon 4
CCGTTTCGATACGTGGAGCCGGTTTGTTGAACGCAGTGTGGCTTATCAGCCGTGGATATGGACATCTGGAAACCATGAGATTGATTATGTCCCTGAAATTgtaagtattgtcatgaaattacttctaaggtcaattgctacagctgtattaagttctacctttggtaatgtaacacgattcaaggtattaatgaaatagtgagattcatggtttgttttgtttctcag
  | |  ||||| ||| |  ||||   |||  | |||   |||||||| || |||||||||||  | ||||||||||||||||||| ||  |||||||||||||| |||   |  | |||  ||| | | |  |  |    | || |||   |||     |||  | || |||     ||  |  |  ||||    |      ||                       
TAGGTGGGATACATGGGGAAGGTTCACTGAGAGAAGTACTGCTTATCAACCTTGGATATGGACTGCAGGAAACCATGAGATTGATTTTGCTCCTGAAATTgtaagcatttctaacatatt--ttcaatgatggaaagtagtatctttat---gtttattttttattgatataatgt--tttgacatggtaatttgttccatcaatct---------------------

upper sequence: PP1S235_62V6.2 (Physcomitrella patens), 5'ss of exon 5
lower sequence: Vv03s0038g00220.t01 (Vitis vinifera), 5'ss of exon 4
CCGTTTCGATACGTGGAGCCGGTTTGTTGAACGCAGTGTGGCTTATCAGCCGTGGATATGGACATCTGGAAACCATGAGATTGATTATGTCCCTGAAATTgtaagtattgtcatgaaattacttctaaggtcaattgctacagctgtattaa--gttctacctttgg----taatgta-acacgat-----tcaaggtattaatgaaatagtgagattc------atggtttgttttgtttctcag
  | |  ||||| ||| |  ||||||||||| | || |  |||||||| || |||||||||||  | |||||||| |||||||||| || |||||| |||||||| ||  |||  | ||| | | |    |   ||  | ||    ||| |   | || ||   ||     | |||||  |  | |     ||||   ||||     | |||||||||       | |     || | |||  |||
TAGGTGGGATACATGGGGTAGGTTTGTTGAAAGAAGCGCTGCTTATCAACCTTGGATATGGACCACAGGAAACCACGAGATTGATTTTGCCCCTGAGATTgtaagcatcctcaacatattccattttttttttttttatgcaaagttatcatttgatcgacagctgaactctgatgtatgcgtgctagacatcaaaacattaccacta-agtgagattataatgaaagagggattcttttttgcag

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|208370970|gb|DC944345.1|DC944345
EST:     GGATATGGACATC-NGAAACCATGAGATTGATTATGTCCCTGAAATT                         AGTGAGATTACTCCATTTAAACCTTTCAATCATCGGTTCCCTACACCATAC
genomic: GGATATGGACATCTGGAAACCATGAGATTGATTATGTCCCTGAAATTgtaagtattg ... tgtttctcagAGTGAGATTACTCCATTTAAACCTTTCAATCATCGGTTCCCTACACCATAC