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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCTAGTGGTGCGGTCCCATGAGGTCAAGGATGAGGGCTATGAAGTGGACCATGGCGGCAAACTCATTACTGTCTTCTCTGCACCAAATTACTGTGATCAGgtaaatcatattggacaagcttgtagctttgacccagaatgtccatgcggtttgaaaacacggcatcttttgtgctaagttgtactgatcttttacatcatcttatgtctgcag

Basic information

species Physcomitrella patens
transcript PP1S87_139V6.2
intron # 11
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S87_139V6.1 (Physcomitrella patens), 5'ss of exon 11
lower sequence: GLYMA08G42380.1 (Glycine max), 5'ss of exon 11
GCTAGTGGTGCGGTCCCATGAGGTCAAGGATGAGGGCTATGAAGTGGACCATGGCGGCAAACTCATTACTGTCTTCTCTGCACCAAATTACTGTGATCAGgtaaatcatattggacaagcttgtagctttgacccagaatgtccatgcggtttgaaaacacggcatcttttgtgctaagttgtactgatcttttacatcatcttatgtctgcag
  |||| ||| | || || || || ||||||||||| |||||  | || ||||  || |||||||| ||||| || ||||| |||||||||||||| |||||||  |||||       |||  ||   ||        || |  |||   ||||   ||  |  ||  | |  |   | |||    ||      |      ||   |       
TTTAGTTGTGAGATCTCACGAAGTAAAGGATGAGGGTTATGAGATTGAACATGAGGGTAAACTCATAACTGTGTTTTCTGCTCCAAATTACTGTGACCAGgtaa-ccatatcccttctgct-atattctttttt----atttttatggcatttgcttacttg--attgtcttggaagatttgagaggagggagaaagggggctggggg------

upper sequence: PP1S87_139V6.1 (Physcomitrella patens), 5'ss of exon 11
lower sequence: GLYMA18G12440.1 (Glycine max), 5'ss of exon 11
GCTAGTGGTGCGGTCCCATGAGGTCAAGGATGAGGGCTATGAAGTGGACCATGGCGGCAAACTCATTACTGTCTTCTCTGCACCAAATTACTGTGATCAGgtaaatcatattggacaagct-tgtagctttgacccagaatgtccatgcggtttgaaaacacggcatcttttgtgctaagttgtactgatcttttacatcatcttatgtctgcag
  |||| ||||| || ||||| || ||||| ||||| |||||  | || ||||  || |||||||| ||||| || ||||| |||||||||||||| |||||||  |||||       |||   |   |||     |     |        |||||       | |   |||| |   ||       |  ||     |                 
-TTAGTTGTGCGATCTCATGAAGTAAAGGACGAGGGTTATGAGATTGAACATGATGGTAAACTCATAACTGTGTTTTCTGCTCCAAATTACTGTGACCAGGtaacacatatcccttttgctacattcttttctattatggcatttgctta-tttgattgtcttggaagatttgagaggagcgaaggggggctgggggaatgg-------------

upper sequence: PP1S87_139V6.1 (Physcomitrella patens), 5'ss of exon 11
lower sequence: AT2G42810.2 (Arabidopsis thaliana), 5'ss of exon 12
GCTAGTGGTGCGGTCCCATGAGGTCAAGGATGAGGGCTATGAAGTGGACCATGGCGGCAAACTCATTACTGTCTTCTCTGCACCAAATTACTGTGATCAGgtaaatcatattggacaagcttgtagctttgacccagaatgtccatgcggtttgaaaacacggcatcttttgtgctaagttgtactgatctt-ttacatcatcttatgtctgcag
  |  |||| ||||| ||||| || || ||||| || ||||| || || |||| ||| |||||||| |||||||||||||| |||||||||||||||||||||| |||     ||||  | |||    ||    || ||   | |  | |||       ||   ||  |||    |||  || |||| | || ||  |                 
TTTGTTGGTCCGGTCACATGAAGTAAAAGATGAAGGTTATGAGGTTGAACATGACGGTAAACTCATAACTGTCTTCTCTGCGCCAAATTACTGTGATCAGgtaactca-----gacactcctgtcttcttatttcaaaacagc-acccagtt-------acttgattctttac-ttaacatggactggtattgttgtag----------------

upper sequence: PP1S87_139V6.1 (Physcomitrella patens), 5'ss of exon 11
lower sequence: Vv12s0142g00720.t01 (Vitis vinifera), 5'ss of exon 5
GCTAGTGGTGCGGTCCCATGAGGTCAAGGATGAGGGCTATGAAGTGGACCATGGCGGCAAACTCATTACTGTCTTCTCTGCACCAAATTACTGTGATCAGgtaaatcatattggacaagcttgtagctttgacccagaatgtccatgcggtttgaaaacacggca-tcttttgtgctaagttgtactgatcttttacatcatcttatgtctgcag
  |||| ||||| || ||||| || |||||||| ||||||||  | || ||||  ||||| || |||||||| || ||||| ||||| || ||||||||||||  | |   |  ||   |||     ||| |        || | |  | ||||||| |   | | || | |    |    |  |||  ||      | ||||  || | |  | 
TTTAGTTGTGCGATCTCATGAAGTAAAGGATGAAGGCTATGAGATTGAACATGATGGCAAGCTTATTACTGTGTTTTCTGCTCCAAACTATTGTGATCAGgtatgtgaggcttaac---ctt-----tttaata------gttccttggatttgaaagcttagaactcgtgtacattcgactaaactcctccagggga-catcacatatgtatat

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|37821905|gb|BJ579971.1|BJ579971
EST:     ATGGCGGCAAACTCATTACTGTCTTCTCTGCACCAAATTACTGTGATCAG                         ATGGGTAATAAAGGAGCTTTTATCCGATTTGGGGCGCCAGATATGAAGCCT
genomic: ATGGCGGCAAACTCATTACTGTCTTCTCTGCACCAAATTACTGTGATCAGgtaaatcata ... atgtctgcagATGGGTAATAAAGGAGCTTTTATCCGATTTGGGGCGCCAGATATGAAGCCT
EST: gi|208390866|gb|DC945897.1|DC945897
EST:     ATGGCGGCAAACTCATTACTGTCTTCTCTGCACCAAATTACTGTGATCAG                         ATGGGTAATAAAGGAGCTTTTATCCGATTTGGGGCGCCAGATATGAAGCCT
genomic: ATGGCGGCAAACTCATTACTGTCTTCTCTGCACCAAATTACTGTGATCAGgtaaatcata ... atgtctgcagATGGGTAATAAAGGAGCTTTTATCCGATTTGGGGCGCCAGATATGAAGCCT
EST: gi|22132216|gb|BQ827040.1|BQ827040
EST:     ATGGCGGCAAACTCATTACTGTCTTCTCTGCACCAAATTACTGTGATCAG                         ATGGGTAATAAAGGAGCTTTTATCCGATTTGGGGCGCCAGATATGAAGCCT
genomic: ATGGCGGCAAACTCATTACTGTCTTCTCTGCACCAAATTACTGTGATCAGgtaaatcata ... atgtctgcagATGGGTAATAAAGGAGCTTTTATCCGATTTGGGGCGCCAGATATGAAGCCT