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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATTGTGAGACCATTGCGATCCAAGCATTGCTCCTCATGCAACCGCTGTGTCGATCAATTTGACCATCATTGTCCTTGGATTTCAAATTGTGTTGGCAAGgtgcgttttttcacttccctgtctgtgttccgtttcctttcttacggcttcttttgttatattgcagcatgattcttcaggggccacctaatatttctag...

Basic information

species Physcomitrella patens
transcript PP1S70_186V6.2
intron # 12
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S70_186V6.1 (Physcomitrella patens), 5'ss of exon 10
lower sequence: LOC_Os11g34860.1 (Oryza sativa), 5'ss of exon 10
ATTGTGAGACCATTGCGATCCAAGCATTGCTCCTCATGCAACCGCTGTGTCGATCAATTTGACCATCATTGTCCTTGGATTTCAAATTGTGTTGGCAAGgtgcgttttttcacttccctgtctgtgttccgtttcctttcttacggcttcttttgttatattgcagcatgattcttcaggggccacctaatatttctag--
||  |  | ||| |||| ||||| |||||  |  | || || | |||||| || || ||||||||||| ||||||||||| |||||||||||||| | |||  |          |    |  |     | |     ||   ||  |||| | ||   || | | || | | |   |   | ||      |  | | |    
ATAATTCGCCCAATGCGCTCCAAACATTGTCCAACTTGTAAGCACTGTGTTGAGCAGTTTGACCATCACTGTCCTTGGATATCAAATTGTGTTGGAAGGgtaagacgggagcaattttggaattccacctgaagttttcaatatagcttgtctt-ccat-tggaagaaagttctcttccgtgctgttgcagctgtattacc

upper sequence: PP1S70_186V6.1 (Physcomitrella patens), 5'ss of exon 10
lower sequence: AT5G20350.1 (Arabidopsis thaliana), 5'ss of exon 10
ATTGTGAGACCATTGCGATCCAAGCATTGCTCCTCATGCAACCGCTGTGTCGATCAATTTGACCATCATTGTCCTTGGATTTCAAATTGTGTTGGCAAGgtgcgttttttcacttccctgtctgtgttccgtttcctttcttacggcttcttttgttatattgca-gcatgattcttcaggggccacctaatatttctag----
||| | |||||  | ||| | ||||| || ||| | ||  | || ||||| || |||||||| || |||||||||||| | |||||||||||||| || ||  ||    |  ||| ||| |     ||  ||||      |    | |       |   | |  | | || |  |||  |       |||| |||||       
ATTATCAGACCTCTTCGAGCTAAGCACTGTTCCACCTGTGATCGTTGTGTAGAGCAATTTGATCACCATTGTCCTTGGGTATCAAATTGTGTTGGAAAAgtaagtacagttcctttcctat-----tttagtttttgacatagaagttggcaaaataggagtagacggatcaggcttttgtttgatactaacatttcatataaa

upper sequence: PP1S70_186V6.1 (Physcomitrella patens), 5'ss of exon 10
lower sequence: Vv03s0088g01260.t01 (Vitis vinifera), 5'ss of exon 10
ATTGTGAGACCATTGCGATCCAAGCATTGCTCCTCATGCAACCGCTGTGTCGATCAATTTGACCATCATTGTCCTTGGATTTCAAATTGTGTTGGCAAGgtgcgttttttc-acttccctgtctgtgttcc----gtttcctttcttacggc-ttcttttgttatattgcagcatga--ttcttcaggggccacctaatatttctag
||  | |||||  | || || ||||| ||| |  |||| || |||||||| || ||||||||||| || || |||||||||||||||||||| || |||||  |    ||  |||||  | ||| ||||      |||        ||| ||  || || ||   | ||    ||||  || ||  | | |||  | ||        
ATAATTAGACCTGTTCGCTCAAAGCACTGCCCTACATGTAAGCGCTGTGTGGAACAATTTGACCACCACTGCCCTTGGATTTCAAATTGTGTAGGGAAGgttagaaagttagacttctttttctttgttttctgggttgatgaggatacagcactccttagtagaaatgtgttatgaactttttatgagaccatgtgat--------

upper sequence: PP1S70_186V6.1 (Physcomitrella patens), 5'ss of exon 10
lower sequence: EFJ29308 (Selaginella moellendorffii), 5'ss of exon 4
ATTGTGAGACCATTGCGATCCAAGCATTGCTCCTCATGCAACCGCTGTGTCGATCAATTTGACCATCATTGTCCTTGGATTTCAAATTGTGTTGGCAAGgtgcgtttttt-cacttcc-ctgtctgtgttccgtttcctttct-tacggcttcttttgttatattgcagcatgattcttcaggggccacctaatatttctag
|| ||||| ||  |  |||||||||| || ||    |||||||||||||| || || || || || |||||||||||||| ||||| |||||||| |||||  | ||    ||||||  |     || |    | |  || ||  |||||                                                    
ATAGTGAGGCCTGTAAGATCCAAGCACTGTTCGATTTGCAACCGCTGTGTAGAGCAGTTCGATCACCATTGTCCTTGGATATCAAACTGTGTTGGGAAGgtaagcttacagcacttctaccagaagtatcaactcttgttcctacacggcag--------------------------------------------------

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|162197925|gb|FC373966.1|FC373966
EST:     TCGATCAATTTGACCATCATTGTCCTTGGATTTCAAATTGTGTTGGCAAG                         AACAACAAATGGGATTTCTTTATTTTCTTATGTATGGAGGTCACAGCCATG
genomic: TCGATCAATTTGACCATCATTGTCCTTGGATTTCAAATTGTGTTGGCAAGgtgcgttttt ... gccttcacagAACAACAAATGGGATTTCTTTATTTTCTTATGTATGGAGGTCACAGCCATG