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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATTCTGTGTCTTTTGGCCATGGAAAAACCAATTTCCCTCAGTCCTGAGCATATTCGGGATGAGAAAGTCAAGgtaaggataatctttctggatttgcagcaatacttgttgtaccaaatgcttcatacatttcatgttttcttattgtagttgtgtgattggtttgcatgaaactgctttccgatactaattaagcttcaccattacactttttaatttgtttcaggttgtgatgtttttggtggtcag

Basic information

species Physcomitrella patens
transcript PP1S192_39V6.4
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S192_39V6.4 (Physcomitrella patens), 5'ss of exon 10
lower sequence: GLYMA16G06850.3 (Glycine max), 5'ss of exon 10
ATTCTGTGTCTTTTGGCCATGGAAAAACCAATTTCCCTCAGTCCTGAGCATATTCGGGATGAGAAAGTCAAGgtaaggataatctttctggatttgcagcaatacttgttgtaccaaatgcttcatacatttcatgttttcttattgtagttgtgtgattggtttgcatgaaactgctttccgatactaattaagcttcaccattacactttttaatttgtttcaggttgtgatgtttttggtggtcag
 |||| ||  |  | || |||||||||||| |||| ||||| |||||||| ||||||||||||||||| |||||  |      || | |  |||     ||||  |  | | |   | | ||   | | | |||| ||||  |      |    || |||      ||    | |   |  |  ||| |                                                            
GTTCTTTGCTTGGTTGCTATGGAAAAACCAGTTTCTCTCAGGCCTGAGCACATTCGGGATGAGAAAGTGAAGgtgtg-----cctctttccatt-----caattttcatgggaattattactctcttc-tgtcatttttttct------gcccagtaattctgacacaaactaatcaatatcagtacca------------------------------------------------------------

upper sequence: PP1S192_39V6.4 (Physcomitrella patens), 5'ss of exon 10
lower sequence: GLYMA19G24250.1 (Glycine max), 5'ss of exon 10
ATTCTGTGTCTTTTGGCCATGGAAAAACCAATTTCCCTCAGTCCTGAGCATATTCGGGATGAGAAAGTCAAGgtaaggataatctttctggatttgcagcaatacttgttgtaccaaatgcttcatacatttcatgttttcttattgtagttgtgtgattggtttgcatgaaactgctttccgatactaattaagcttcaccattacactttttaatttgtttcaggttgtgatgtttttggtggtcag
 |||| ||  |  | || |||||||||||| |||| ||||| |||||||| ||||||||||||||||| |||||  |      || | |  |||     ||||  |  ||| |   | | ||            | || | | |||            ||  | ||| |   |||  |||| || || || ||| |   | || |||                                          
GTTCTTTGCTTGGTTGCTATGGAAAAACCAGTTTCTCTCAGGCCTGAGCACATTCGGGATGAGAAAGTGAAGgtgtg-----cctctttccatt-----caattttcattggaattattactc-----------tcttctttcatt------------ttattctgcct---acttttttctgacacaaactaatcaatatcagtacc-----------------------------------------

upper sequence: PP1S192_39V6.4 (Physcomitrella patens), 5'ss of exon 10
lower sequence: GLYMA19G22690.1 (Glycine max), 5'ss of exon 10
ATTCTGTGTCTTTTGGCCATGGAAAAACCAATTTCCCTCAGTCCTGAGCATATTCGGGATGAGAAAGTCAAGgtaaggataatctttctggatttgcagcaatacttgttgtaccaaatgcttcatacatttcatgttttcttattgtagttgtgtgattggtttgcatgaaactgctttccgatactaattaagcttcaccattacactttttaatttgtttcaggttgtgatgtttttggtggtcag
 || | ||  |  | || |||||||||||| |||| ||||  |||||||| ||||||||||||||| | |||||  |  |  |     |  |||||     ||  || || | ||   |   |||| || ||| || ||||   |  |  |  |     |  |       | ||  |||||   |  | ||  |  | ||  ||| ||                                         
GTTTTTTGCTTGGTTGCTATGGAAAAACCAGTTTCTCTCAAGCCTGAGCACATTCGGGATGAGAAACTGAAGgtttgtctctttccattcaatttgtgtggattttttttctccctcttcagtcattcaattcttgctttccattcttgttcataatgctcatagcttctataccactttct--tgttgatatacatacaa-attgcag----------------------------------------

upper sequence: PP1S192_39V6.4 (Physcomitrella patens), 5'ss of exon 10
lower sequence: AT5G40760.1 (Arabidopsis thaliana), 5'ss of exon 10
ATTCTGTGTCTTTTGGCCATGGAAAAACCAATTTCCCTCAGTCCTGAGCATATTCGGGATGAGAAAGTCAAGgtaaggataatctttctggatttgcagcaatacttgttgtaccaaatgcttcatacatttcatgttttcttattgtagttgtgtgattggtttgcatgaaactgctttccgatactaattaagcttcaccattacactttttaatttgtttcaggttgtgatgtttttggtggtcag
 |||| || ||| | |||||||| |||||||| || || |  ||||||||||| |||||||||||||| ||||| |  | |  ||||     | |  | || |  |||   | | |  || ||  | | || | | |||| |   || | |  | ||||||      |  |     || |  |||                                                                
GTTCTTTGCCTTGTTGCCATGGAGAAACCAATATCTCTTAAACCTGAGCATATCCGGGATGAGAAAGTGAAGgtgaacaaatacttt-----tcttgaccactttttgccattctatctggtt--ttcgttgcctcttttatc--tgaattcatatgattg------agaacctcactgtttgatct--------------------------------------------------------------

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|208381262|gb|DC919152.1|DC919152
EST:     TTCGGGATGAGNAAGTCAAG                         NTT-TNGAATGTATT-AGCCTTTCAATGACCAAGAGGTGGTTATTGGACAG
genomic: TTCGGGATGAGAAAGTCAAGgtaaggataa ... tggtggtcagGTTCTGGAATGTATTAAGCCTTTCAATGACAAAGAGGTGGTTATTGGACAG
EST: gi|162173094|gb|FC349200.1|FC349200
EST:     GGATGAGAAAGTCAAG                         GTTCTGGAATGTATTAAGCCTTTCAATGACAAAGAGGTGGTTATTGGACAG
genomic: GGATGAGAAAGTCAAGgtaaggataa ... tggtggtcagGTTCTGGAATGTATTAAGCCTTTCAATGACAAAGAGGTGGTTATTGGACAG
EST: gi|162279046|gb|FC455073.1|FC455073
EST:     AAAAACCAATTTCCCTCAGTCCTGAGCATATTCGGGATGAGAAAGTCAAG                         GTTCTGGAATGTATTAAGCCTTTCAATGACAAAGAGGTGGTTATTGGACAG
genomic: AAAAACCAATTTCCCTCAGTCCTGAGCATATTCGGGATGAGAAAGTCAAGgtaaggataa ... tggtggtcagGTTCTGGAATGTATTAAGCCTTTCAATGACAAAGAGGTGGTTATTGGACAG