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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTATTGCATGTCTTGATGTTCGAAGTAACGACTCAGGGGACCTTGTTGTGACTAAAGGTGATCAGTATGATGTACGAGAACAATCTTCAGCACGTGAGgtgagcgctatgcttttgaagaggttattactcttgtgcagacttgtatgatttcatttttctgaggaagatagacctactttgtaacatagcttggaaggggaagggttccctttctattcatattagtcgatgcatactttatgtgtgattttaacaaggtcccttggatttataaattgctag

Basic information

species Physcomitrella patens
transcript PP1S43_232V6.1
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S43_232V6.1 (Physcomitrella patens), 5'ss of exon 9
lower sequence: GLYMA18G12920.1 (Glycine max), 5'ss of exon 10
GTTATTGCATGTCTTGATGTTCGAAGTAACGACTCAGGGGACCTTGTTGTGACTAAAGGTGATCAGTATGATGTACGAGAACAATCTTCAGCACGTGAGgtgagcgctatgcttttgaagaggttattactcttgtgcagacttgtatgatttca---tttttctgaggaagat----agacctactttgtaacatagcttggaaggggaagggttccctttctattcatattagtcgatgcatactttatgtgtgattttaacaaggtcccttggatttataaattgctag
|| ||||| |||||||||||  |||  || ||    |||||||||||||| || ||||| || |||||||||||| |||||||  |   ||    ||||||    || ||  |  | |    |||||||   || ||     |||  |    |||   ||   ||   | | ||    ||||  ||| |  || |||                                                                                               
GTGATTGCTTGTCTTGATGTGAGAACAAATGATAAGGGGGACCTTGTTGTAACCAAAGGAGACCAGTATGATGTAAGAGAACATACAAAAGAGAATGAGgtattagcaatagtactcattttgttattatatttatg-gtttttgagtttgctcaaaattcaactagagtatatgccaagacacactgtacaatataatc--------------------------------------------------------------------------------------------

upper sequence: PP1S43_232V6.1 (Physcomitrella patens), 5'ss of exon 9
lower sequence: GLYMA18G10460.1 (Glycine max), 5'ss of exon 10
GTTATTGCATGTCTTGATGTTCGAAGTAACGACTCAGGGGACCTTGTTGTGACTAAAGGTGATCAGTATGATGTACGAGAACAATCTTCAGCACGTGAGgtgagcgctatgcttttgaagaggttattactcttgtgcagacttgtatgatttca---tttttctgaggaagat----agacctactttgtaacatagcttggaaggggaagggttccctttctattcatattagtcgatgcatactttatgtgtgattttaacaaggtcccttggatttataaattgctag
|| ||||| ||||| |||||  |||  || ||    |||||||||||||| || ||||| || |||||||||||| |||||||  |   ||    ||||||    || ||  |  | |    |||||||   || ||     |||  |    |||   ||   ||   | | ||    ||||  ||| |  || |||                                                                                               
GTGATTGCTTGTCTCGATGTGAGAACAAATGATAAGGGGGACCTTGTTGTAACCAAAGGAGACCAGTATGATGTAAGAGAACATACAAAAGAGAATGAGgtatcagcaatagtactcattttgttattatatttatg-gtttttgagtttgctcaaaattgaactagagtatatgccaagacacactgtacaatataatc--------------------------------------------------------------------------------------------
















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|100372791|gb|BY948705.1|BY948705
EST:     GACTAAGGGTGATCAGTATGATGTACGAGAACAATCTTCAGCACGTGGAG                         -TCCGCAATCTAGGNAAACCCGTGGAACTTGCAGGNCGCTATTTTCAAAG
genomic: GACTAAAGGTGATCAGTATGATGTACGAGAACAATCTTCAGCACGTG-AGgtgagcgcta ... aaattgctagGTCCGCAATCTAGGAAAACCCGTGGAACTTGCAGGGCGCTATTT-CAAAG
EST: gi|162240842|gb|FC417513.1|FC417513
EST:     TGACTAAAGGTGATCAGTATGATGTACGAGAACAATCTTCAGCACGTGAG                         GTCCGCAATCTAGGAAAACCCGTGGAACTTGCAGGGCGCTATTTC
genomic: TGACTAAAGGTGATCAGTATGATGTACGAGAACAATCTTCAGCACGTGAGgtgagcgcta ... aaattgctagGTCCGCAATCTAGGAAAACCCGTGGAACTTGCAGGGCGCTATTTC