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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGCGACCATTGGAGGGATTTCACATAGTTGTGGACGCAGGGAATGGGGCAGGCGGCTTCTTCGCAgtaagcgagctattctattatttaggatctgcttagcacaagcacgatgtttatcgctcttactctctgatgaatctctttacacacctatttggtagtattctctgacactttgtgttgatgccattactttgcttctacctgctgtgtgcattgattggattttgattgaatgtatgcatag

Basic information

species Physcomitrella patens
transcript PP1S152_87V6.2
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S152_87V6.1 (Physcomitrella patens), 5'ss of exon 8
lower sequence: LOC_Os07g26610.1 (Oryza sativa), 5'ss of exon 8
AGCGACCATTGGAGGGATTTCACATAGTTGTGGACGCAGGGAATGGGGCAGGCGGCTTCTTCGCAgtaagcgagctattctattattt--aggatctgcttagcacaagcacgatgtttatcgctcttactctctgatgaatctctttacacacctatttggtagtattctctgacactttgtgttgatgccattactttgcttctacctgctgtgtgcattgattggattttgattgaatgtatgcatag
|   |||| |||||||| | |||||||| ||||| ||||||||||| ||||| ||||| || |  |||| |    || |    |||||  |  |  || ||  ||  |   |    ||| | | |   | |   || ||    ||||    ||                                                                                                  
AAAAACCACTGGAGGGACTGCACATAGTCGTGGATGCAGGGAATGGAGCAGGTGGCTTTTTTGTGgtaatccctttacttccatatttccattaattgtttttcagcaatgcaccattttttgtttgaagttcatgttg---ttcttggatcag-------------------------------------------------------------------------------------------------

upper sequence: PP1S152_87V6.1 (Physcomitrella patens), 5'ss of exon 8
lower sequence: GLYMA10G35490.2 (Glycine max), 5'ss of exon 7
AGCGACCATTGGAGGGATTTCACATAGTTGTGGACGCAGGGAATGGGGCAGGCGGCTTCTTCGCAgtaagcgagctattctattatttaggatctgcttagcacaagcacgatgtttatcgctcttactctctgatgaatctctttacacacctatttggtagtattctctgacactttgtgttgatgccattactttgcttctacctgctgtgtgcattgattggattttgattgaatgtatgcatag
||  |||||||||||| || || |||||||| || ||||| ||||| ||||| ||||| || |||||||||   ||    || | |     |  | | | |  |   |  |||   ||||     |  |   |  | |    ||| | | | |||| |   || ||| |  |||||                                                                         
AGAAACCATTGGAGGGTTTCCATATAGTTGTTGATGCAGGCAATGGAGCAGGAGGCTTTTTTGCAgtaagctgcct---ttaatctcctcaactttcattgttct--cttgataactatcaagtatgatgcattttca----cttgaaatatctatataaaag-attgtg-gacac-------------------------------------------------------------------------
















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|162196622|gb|FC374912.1|FC374912
EST:     GATTTCACATAGTTGTGGACGCAGGGAATGGGGCAGGCGGCTTCTTCGCA                         GGGCGTGTCCTGGAGCCTTTGGGGGCAGTTACCACTGGAAGTCAATTCCTG
genomic: GATTTCACATAGTTGTGGACGCAGGGAATGGGGCAGGCGGCTTCTTCGCAgtaagcgagc ... gtatgcatagGGGCGTGTCCTGGAGCCTTTGGGGGCAGTTACCACTGGAAGTCAATTCCTG
EST: gi|100352594|gb|BY945350.1|BY945350
EST:     GATTTCACATAGTTGTGGACGCAGGGAATGGGGCAGGCGGCTTCTTCGCA                         GGGCGTGTCCTGGAGCCTTTGGGGGCAGTTACCACTGGAAGTCAATTCCTG
genomic: GATTTCACATAGTTGTGGACGCAGGGAATGGGGCAGGCGGCTTCTTCGCAgtaagcgagc ... gtatgcatagGGGCGTGTCCTGGAGCCTTTGGGGGCAGTTACCACTGGAAGTCAATTCCTG
EST: gi|162196876|gb|FC375153.1|FC375153
EST:     GATTTCACATAGTTGTGGACGCAGGGAATGGGGCAGGCGGCTTCTTCGCA                         GGGCGTGTCCTGGAGCCTTTGGGGGCAGTTACCACTGGAAGTCAATTCCTG
genomic: GATTTCACATAGTTGTGGACGCAGGGAATGGGGCAGGCGGCTTCTTCGCAgtaagcgagc ... gtatgcatagGGGCGTGTCCTGGAGCCTTTGGGGGCAGTTACCACTGGAAGTCAATTCCTG
EST: gi|162215700|gb|FC391415.1|FC391415
EST:     GATTTCACATAGTTGTGGACGCAGGGAATGGGGCAGGCGGCTTCTTCGCA                         GGGCGTGTCCTGGAGCCTTTGGGGGCAGTTACCACTGGAAGTCAATTCCTG
genomic: GATTTCACATAGTTGTGGACGCAGGGAATGGGGCAGGCGGCTTCTTCGCAgtaagcgagc ... gtatgcatagGGGCGTGTCCTGGAGCCTTTGGGGGCAGTTACCACTGGAAGTCAATTCCTG
EST: gi|162159476|gb|FC336265.1|FC336265
EST:     GATTTCACATAGTTGTGGACGCAGGGAATGGGGCAGGCGGCTTCTTCGCA                         GGGCGTGTCCTGGAGCCTTTGGNGGCAGTTACCACTGGAAGTCA-TTCCCT
genomic: GATTTCACATAGTTGTGGACGCAGGGAATGGGGCAGGCGGCTTCTTCGCAgtaagcgagc ... gtatgcatagGGGCGTGTCCTGGAGCCTTTGGGGGCAGTTACCACTGGAAGTCAATTCC-T