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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTCATCGTTTGTGAGTTACTTCGAGCTAACCTATACGAGTTTCATAAATACAACAGAGAATCAGGTGGCGAGGTGTACTTTACGATGCCCCGTCTTCAGgtgtgttctctcatccttaatcccgacgttgtttacgtttttttctctttactatctgtgttgacaatccacttatgattgatttatagtagatttccct...

Basic information

species Physcomitrella patens
transcript PP1S381_39V6.1
intron # 12
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S381_39V6.1 (Physcomitrella patens), 5'ss of exon 12
lower sequence: GRMZM2G181002_T01 (Zea mays), 5'ss of exon 4
GTTCATCGTTTGTGAGTTACTTCGAGCTAACCTATACGAGTTTCATAAATACAACAGAGAATCAGGTGGCGAGGTGTACTTTACGATGCCCCGTCTTCAGgtgtgttctctcatccttaatc-ccgacgttgtttacgtttttttctctttactatctgtgttgacaatccacttatgattgatttatagtagatttccct-----------------------
| | || || |||||  | ||    || || || ||||||||||| |||| ||||||||||||||| || ||||| ||||| || |||||  | || ||||| |       |    |||  | |  | ||||  |   || |||       | || |       || || |    ||  || |  || | | ||| |   |                       
GCTGATAGTCTGTGAACTTCTGAAGGCAAATCTGTACGAGTTTCAGAAATTCAACAGAGAATCAGGGGGTGAGGTTTACTTCACAATGCCAAGACTGCAGgtattactgagctaggttatccactaatgttgact-tattgtttgactaccagtaacaaaac--acgattctacaatttttcacatagatttgatatttttttctttgttgtaccccttggcag

upper sequence: PP1S381_39V6.1 (Physcomitrella patens), 5'ss of exon 12
lower sequence: GRMZM2G015073_T01 (Zea mays), 5'ss of exon 4
GTTCATCGTTTGTGAGTTACTTCGAGCTAACCTATACGAGTTTCATAAATACAACAGAGAATCAGGTGGCGAGGTGTACTTTACGATGCCCCGTCTTCAGgtgtgttctctcatccttaatcccgacgtt-gtttacgtt--tttttctctttactatctgtgttgaca-atccacttatgattg-----atttatagtagatttccct-------------------
| | || || |||||  | ||    || || || || |||||||| |||| ||||||||||||||| || ||||| ||||| || |||||  | || ||||| | || | | | |   | |   || ||   || |  ||   ||     || || | |  |  ||  | ||     ||  |||      ||| || | | ||||                       
GCTGATAGTCTGTGAACTTCTGAAGGCAAATCTGTATGAGTTTCAGAAATTCAACAGAGAATCAGGGGGTGAGGTTTACTTCACAATGCCAAGACTCCAGgtat-ttgttttaccg--agttatgatgtccattaatattgacttaatgtttcacaaccaataatggaatatgagactacaatttttcacattgattgaatattttttctttgttgtgcccttggcag

upper sequence: PP1S381_39V6.1 (Physcomitrella patens), 5'ss of exon 12
lower sequence: GLYMA05G33560.1 (Glycine max), 5'ss of exon 4
GTTCATCGTTTGTGAGTTACTTCGAGCTAACCTATACGAGTTTCATAAATACAACAGAGAATCAGGTGGCGAGGTGTACTTTACGATGCCCCGTCTTCAGgtgtgttctctcatccttaatcccgacgttgtttacgtttttttctctttactatctgtgttgacaatccacttatgattgatttatagtagatttccct
||| || || |||||  |||||  ||| ||| | || |||||||||||||  || |||||||||||||| || ||||||||||| |||||  |  | |||||  ||  | |     ||| | |  | | ||||||  |||  |  | | || | || |||    ||| |   |    |||||| | | | ||        
GTTAATAGTATGTGAACTACTTAAAGCAAACTTGTATGAGTTTCATAAATTTAATAGAGAATCAGGTGGTGAAGTGTACTTTACAATGCCAAGATTGCAGgttcgtcgtgtgccatttacttc--atgatgtttaattttaatcttttctattctcagtg----caaactcttctgaattgatgtgt-gcag--------

upper sequence: PP1S381_39V6.1 (Physcomitrella patens), 5'ss of exon 12
lower sequence: GLYMA08G06160.1 (Glycine max), 5'ss of exon 6
GTTCATCGTTTGTGAGTTACTTCGAGCTAACCTATACGAGTTTCATAAATACAACAGAGAATCAGGTGGCGAGGTGTACTTTACGATGCCCCGTCTTCAGgtgtgttctctcatccttaatcccgacgttgtttacgtttttttctctttactatctgtgttgacaatccacttatgattgatttatagtagatttccct
||| || || |||||| |||||  ||| ||| | || |||||||||||||  || |||||||||||||| || ||||||||||| |||||  |  | ||||| |||  | |  |  ||| | |  | | ||||||    ||||  ||||  ||||     |||  ||  |   |   |||||| | | | ||        
GTTAATAGTATGTGAGCTACTTAAAGCAAACTTGTATGAGTTTCATAAATTTAATAGAGAATCAGGTGGTGAAGTGTACTTTACAATGCCAAGATTGCAGgtttgtggtgtgctatttacttc--atgatgtttaa---ttttcatcttatctattctcattgcaaactcttctg-aattgatgtgt-gcag--------

upper sequence: PP1S381_39V6.1 (Physcomitrella patens), 5'ss of exon 12
lower sequence: EFJ29918 (Selaginella moellendorffii), 5'ss of exon 2
GTTCATCGTTTGTGAGTTACTTCGAGCTAACCTATACGAGTTTCATAAATACAACAGAGAATCAGGTGGCGAGGTGTACTTTACGATGCCCCGTCTTCAGgtgtgttctctcatccttaatcccgacgttgtttacgtttttttctctttactatctgtgttgacaatccacttatgattgatttatagtagatttccct
 || ||||| |||||| |||| |||||||| || ||||||||||| || |||||| |||| || || || ||||| || || ||||||||  |  | |||||  |   | |      ||   |  | || | ||   ||  |  ||||  |   | ||                                          
ATTTATCGTCTGTGAGCTACTACGAGCTAATCTGTACGAGTTTCACAAGTACAACCGAGATTCGGGAGGGGAGGTCTATTTCACGATGCCTAGATTGCAGgtaggaagtgtt----ctagctcacaggtggattttattcgtaactctcgaaactttgcag---------------------------------------

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|162271795|gb|FC448928.1|FC448928
EST:     GTGTACTTTACGATGCCCCGTCTTCAG                         TCAATCGCACGACAATGCCTGGAGGCTCTGGAGTTTATTCATGGTTTGGGC
genomic: GTGTACTTTACGATGCCCCGTCTTCAGgtgtgttctc ... ttatgtgtagTCAATCGCACGACAATGCCTGGAGGCTCTGGAGTTTATTCATGGTTTGGGC
EST: gi|162242877|gb|FC415307.1|FC415307
EST:     ACAACAGAGAATCAGGTGGCGAGGTGTACTTTACGATGCCCCGTCTTCAG                         TCAATCGCACGACAATGCCTGGAGGCTCTGGAGTTTATTCATGGTTTGGGC
genomic: ACAACAGAGAATCAGGTGGCGAGGTGTACTTTACGATGCCCCGTCTTCAGgtgtgttctc ... ttatgtgtagTCAATCGCACGACAATGCCTGGAGGCTCTGGAGTTTATTCATGGTTTGGGC