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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACGATCAGCTATTCGGCAGAACGTGTTGTTGGCACTGGATCATTCGGGATTGTCTTCCAGgtgattgttaggattaagctctgttcaatttggcgctgtaacgaattctcctttccgctcagacagacctcgtatggaatctggtgtgtggtccgcgatggaggtttcgcacatgtttgttcgcctctcggaatagctcatacggaaagataactgaatgatttttgcgtgttaatgtgtgttgccag

Basic information

species Physcomitrella patens
transcript PP1S306_43V6.2
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S306_43V6.2 (Physcomitrella patens), 5'ss of exon 4
lower sequence: GLYMA13G36570.1 (Glycine max), 5'ss of exon 2
ACGATCAGCTATTCGGCAGAACGTGTTGTTGGCACTGGATCATTCGGGATTGTCTTCCAGgtgattgttaggattaagctctgttcaatttggcgctgtaacgaattctcctttccgctcagacagacctcgtatggaatctggtgtgtggtccgcgatggaggtttcgcacatgtttgttcgcctctcggaatagctcatacggaaagataactgaatgatttttgcgtgttaatgtgtgttgccag
|| ||||| ||   ||| ||||||||||||||||||||||||||||| ||||| |||||||| |   | ||  | |||   |   |  ||| | |   ||||   | || |||| |  ||           ||   | ||||  | | || | | |      || ||     |||||  ||     |  | || |                                                     
ACCATCAGTTACATGGCTGAACGTGTTGTTGGCACTGGATCATTCGGAATTGTTTTCCAGgtaaggataag--tgaagtaattacctctttag-gtgataactgttcctactttgctttccc-----tgctgtcaagtatctcatat-tgcttcacaccattgggtt-----atgttcctttttgaccggaaacaaag--------------------------------------------------

upper sequence: PP1S306_43V6.2 (Physcomitrella patens), 5'ss of exon 4
lower sequence: GLYMA06G42840.1 (Glycine max), 5'ss of exon 3
ACGATCAGCTATTCGGCAGAACGTGTTGTTGGCACTGGATCATTCGGGATTGTCTTCCAGgtgattgttaggattaagctctgttcaatttggcgctgtaacgaattctcctttcc-gctcagacagacctcgtatggaatctggtgtgtggtccgcga-tggaggtttcgcacatgtttgttcgcctctcggaatagctcatacggaaagataactgaatgatttttgcgtgttaatgtgtgttgccag
|| ||||| ||   |||||||||||||||||||||||||||||| ||  |||| |||||||| |      |||| ||        ||||    |   || || | |  ||||||   |||    | |   ||   |   ||||  | |||  ||| | | |||| |      |||| | | ||   |       ||||                                                    
ACCATCAGTTACATGGCAGAACGTGTTGTTGGCACTGGATCATTTGGAGTTGTTTTCCAGgtaa------ggatgaa--------caatc-accaaggtgacaactattccttttaagctttctctgctgtcaagt---atctcat-tgttttccaccactggatg------acatttctcttttacctaaaacatag----------------------------------------------------

upper sequence: PP1S306_43V6.2 (Physcomitrella patens), 5'ss of exon 4
lower sequence: GLYMA12G33950.1 (Glycine max), 5'ss of exon 3
ACGATCAGCTATTCGGCAGAACGTGTTGTTGGCACTGGATCATTCGGGATTGTCTTCCAGgtgattgttaggattaagctctgttcaatttggcgctgtaacgaattctcctttccgctcagacagacctcgtatggaatctggtgtgtggtccgcgatggaggtttcgcacatgtttgttcgcctctcggaatagctcatacggaaagataactgaatgatttttgcgtgttaatgtgtgttgccag
|| ||||| ||   ||| |||||||||||||||||||||||||| || ||||| |||||||| |   | ||   | |  |   | | ||| || |   ||||   | || |||| |  ||       |||  | |  | | |    | | ||         |   || |   |||||  ||     |  | || |                                                     
ACCATCAGTTACATGGCCGAACGTGTTGTTGGCACTGGATCATTTGGCATTGTTTTCCAGgtaaggataag---tgaagtaattaccattaggtg--ataactgttcctactttgctttc-------cctgctgtcaagtatctcatattgttt----cacacccttgggttatgttcctttttgacctgaaacaaag--------------------------------------------------

upper sequence: PP1S306_43V6.2 (Physcomitrella patens), 5'ss of exon 4
lower sequence: GLYMA12G15470.2 (Glycine max), 5'ss of exon 3
ACGATCAGCTATTCGGCAGAACGTGTTGTTGGCACTGGATCATTCGGGATTGTCTTCCAGgtgattgttaggattaagctctgttcaatttggcgctgtaacgaattctcctttccgctcagacagacctcgtatggaatctggtgtgtggtccgcgatggaggtttcgcacatgtttgttcgcctctcggaatagctcatacggaaagataactgaatgatttttgcgtgttaatgtgtgttgccag
|| ||||| ||   |||||||||||||||||||||||||||||| ||  |||| || |||||     | |  | | | ||   |   |  |    || | | |  |||||      |||   ||| | |||  || |  |        |||   ||  |     |||  |  |  | |                                                                      
ACCATCAGTTACATGGCAGAACGTGTTGTTGGCACTGGATCATTTGGAGTTGTTTTTCAGgtatggatgaacaatcacctagatgacaaatattcctattaagctttctct-----gctgtcacatatctc--attgttttccacccctggatggcattcctcttttacctaaaatatag--------------------------------------------------------------------

upper sequence: PP1S306_43V6.2 (Physcomitrella patens), 5'ss of exon 4
lower sequence: AT2G30980.1 (Arabidopsis thaliana), 5'ss of exon 3
ACGATCAGCTATTCGGCAGAACGTGTTGTTGGCACTGGATCATTCGGGATTGTCTTCCAGgtgattgttaggattaa-gctctgttcaatttggcgctgtaacgaattctcctttccgctcagacagacctcgtatggaatctggtgtgtggtccgcgatggaggtttcgcacatgtttgttcgcctctcggaatagctcatacggaaagataactgaatgatttttgcgtgttaatgtgtgttgccag
|| || || ||   ||| |||||||||||||| || ||||||||||| ||||| |||||||| ||  ||  | ||    || | | ||       |   |   |  || ||||||| | |||||  |    | ||   | ||| |                                                                                                        
ACCATTAGTTACATGGCCGAACGTGTTGTTGGAACAGGATCATTCGGAATTGTATTCCAGgt-atcattgtgcttgtcactgtctacaggcaaatggctttttgtctt-tcctttctgatcagattgttaacttacc-attctag--------------------------------------------------------------------------------------------------------

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|162196892|gb|FC373297.1|FC373297
EST:     ATTCGGCAGAACGTGTTGTTGGCACTGGATCATTCGGGATTGTCTTCCAG                         GCAAAATGCATCGAAACTGGGGAGACGGTGGCTATAAAGAAAGTGTTGCAG
genomic: ATTCGGCAGAACGTGTTGTTGGCACTGGATCATTCGGGATTGTCTTCCAGgtgattgtta ... gtgttgccagGCAAAATGCATCGAAACTGGGGAGACGGTGGCTATAAAGAAAGTGTTGCAG
EST: gi|100387363|gb|BY970507.1|BY970507
EST:     ATTCGGCAGAACGTGTTGTTGGCACTGGATCATTCGGGATTGTCTTCCAG                         GCAAAATGCATCGAAACTGGGGAGACGGTGGCTATAAAGAAAGTGTTGCAG
genomic: ATTCGGCAGAACGTGTTGTTGGCACTGGATCATTCGGGATTGTCTTCCAGgtgattgtta ... gtgttgccagGCAAAATGCATCGAAACTGGGGAGACGGTGGCTATAAAGAAAGTGTTGCAG