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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AATACATTTCACCGATTCGACAAGTTCAACTTGAAGTATAATCCTTGTGGCCAGAGTAGGCTAAGGGAAATATTCCTAAAGCAGGACAATCACATCCAAGgtaacgcgtctttcagggaagtcctcagaattagtttgaatctacatgcttgcgatgatgtgaaatcactcacaattattcgaatgatgttcacttttgc...

Basic information

species Physcomitrella patens
transcript PP1S77_89V6.1
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S77_89V6.1 (Physcomitrella patens), 5'ss of exon 9
lower sequence: LOC_Os07g49270.1 (Oryza sativa), 5'ss of exon 10
AATACATTTCACCGATTCGACAAGTTCAACTTGAAGTATAATCCTTGTGGCCAGAGTAGGCTAAGGGAAATATTCCTAAAGCAGGACAATCACATCCAAGgtaacgcgtctttcagggaagtcctcagaattagtttg--aatctacatgcttgcgatgatgtgaaatcactcacaattattcgaatgatgttcacttttgc--------------------------------------------------------------------------
| |||||| || || || ||||||||||| |||||||||||||||||||||||     |||| ||||| || || || || |||||||| |  || ||||||    | | | |   |       ||  |  || ||    |||| |     ||    |  ||| | ||        | |  ||||    |||| |||  ||                                                                           
AGTACATTCCATCGCTTTGACAAGTTCAATTTGAAGTATAATCCTTGTGGCCAATCCCGGCTGAGGGAGATCTTTCTTAAACAGGACAACCTTATTCAAGgtgcaccttttgttttgtcttgtttcctacgtatttcagtaatcgatgccattctcgttttgttatattttctttcagttgtcgagaactgtt-actcatgttctatgttgaccttattctcagcataccctgtatatgtacaattctttaaaatgttgtattgtcttcttaatag

upper sequence: PP1S77_89V6.1 (Physcomitrella patens), 5'ss of exon 9
lower sequence: GLYMA08G40690.1 (Glycine max), 5'ss of exon 10
AATACATTTCACCGATTCGACAAGTTCAACTTGAAGTATAATCCTTGTGGCCAGAGTAGGCTAAGGGAAATATTCCTAAAGCAGGACAATCACATCCAAGgtaacgcgtctttcagggaagtcc--tcagaattagtttgaatctacatgcttgc-gatgatgtgaaatc---actcacaattattcgaatgatgttcacttttgc----------------
|  ||||| ||  |||| ||||| |||||| | ||||||||||||||||| ||||| || ||||| ||||||||  |||||||||| ||||  ||||| |||            | | | ||    |   | ||| ||  | | |  || |   | ||  ||  ||| |      | |   || ||  | | ||  |  |||                    
AGCACATTCCATAGATTTGACAAATTCAACCTTAAGTATAATCCTTGTGGACAGAGCAGACTAAGAGAAATATTTTTAAAGCAGGATAATCTTATCCAGGgttggtttcagaataagaatgtttcgtattatttacttctattatgaattccaactgaatattagaagtgttagtttatgcttcttgaagtcataatagcttaaagccaccaaaatttacag

upper sequence: PP1S77_89V6.1 (Physcomitrella patens), 5'ss of exon 9
lower sequence: GLYMA03G07460.1 (Glycine max), 5'ss of exon 9
AATACATTTCACCGATTCGACAAGTTCAACTTGAAGTATAATCCTTGTGGCCAGAGTAGGCTAAGGGAAATATTCCTAAAGCAGGACAATCACATCCAAGgtaacgcgtctttcagggaagtcctcagaattagtttgaatctacatgcttgcgatgatgtgaaatcactcacaattattcga--atgatgttcacttttgc
| ||| ||||| || || || ||||||||  | || || ||||||||||| || |||||||| ||||| ||||| || |||||||| |||| ||| |||||||||   | |||  |   |   ||  |   ||       | |   | ||||  || |  |  ||     || || ||| | |   |  ||| ||  |||  
AGTACTTTTCATCGCTTTGATAAGTTCAATCTTAAATACAATCCTTGTGGTCAAAGTAGGCTGAGGGAGATATTTCTGAAGCAGGATAATCTCATACAAGgtaacatttttttgggtataacact--gtcctatcacacctgtgtttacttgtaatcaaattcaaaggggcagaaatatcctatggttttgtgcagctttct

upper sequence: PP1S77_89V6.1 (Physcomitrella patens), 5'ss of exon 9
lower sequence: AT2G38280.2 (Arabidopsis thaliana), 5'ss of exon 9
AATACATTTCACCGATTCGACAAGTTCAACTTGAAGTATAATCCTTGTGGCCAGAGTAGGCTAAGGGAAATATTCCTAAAGCAGGACAATCACATCCAAGgtaac-gcgtctttcagggaagtcctcagaattagtttgaatctacatgcttgcgatgatgtgaaatcactcacaattattcgaatgatgttcacttttgc------
| ||| ||||| || || || ||||||||| | |||||||| |||||||| || |||||||| ||||| || ||||| || ||||| |||| ||||||||||||  |  |  | |||  |    || |  |    ||| | |  |  || |      | | ||    ||||| || ||    ||    | ||  | ||||       
AGTACCTTTCATCGTTTTGATAAGTTCAACCTAAAGTATAACCCTTGTGGTCAAAGTAGGCTTAGGGAGATTTTCCTTAAACAGGATAATCTCATCCAAGgtaattgaatactccagtca--ctcttattaccgtttttagttcatttgatgcatcagttatg----cactctcagttgcctgacatttattttcgtttggtttaag

upper sequence: PP1S77_89V6.1 (Physcomitrella patens), 5'ss of exon 9
lower sequence: Vv01s0026g01480.t01 (Vitis vinifera), 5'ss of exon 9
AATACATTTCACCGATTCGACAAGTTCAACTTGAAGTATAATCCTTGTGGCCAGAGTAGGCTAAGGGAAATATTCCTAAAGCAGGACAATCACATCCAAGgtaacgcgt-ctttcagggaagtcctcagaattagtttgaatctacatgcttgcgatgatgtgaaatcactcacaattattcgaatgatgttcacttttgc-
| ||| || ||  |||| |||||||||||  | |||||||||||||| || || || ||  |||| || || ||| |||||||||||||||  |||||||||     |  | ||      ||  || | | |||  ||   |  |||   ||  ||  || |||| ||  | ||| | |||    |     |||   ||   
AGTACCTTCCATAGATTTGACAAGTTCAATCTTAAGTATAATCCTTGCGGACAAAGCAGATTAAGAGAGATCTTCTTAAAGCAGGACAATCTTATCCAAGgtttgaagcacattggaatgagaacttaaactta--ttacctaaacaaaatttggaaaatatgaagtcgataacagtcattttgtttggtgtcatcgttatg

upper sequence: PP1S77_89V6.1 (Physcomitrella patens), 5'ss of exon 9
lower sequence: EFJ17267 (Selaginella moellendorffii), 5'ss of exon 8
AATACATTTCACCGATTCGACAAGTTCAACTTGAAGTATAATCCTTGTGGCCAGAGTAGGCTAAGGGAAATATTCCTAAAGCAGGACAATCACATCCAAGgta-acgcgtctttcagggaagtcctcagaattagtttga--atctacatgcttgcgatgatgtgaaatcactcacaattattcgaatgatgttcacttttgc
||||| || ||  ||||||| || || ||||| || || ||||||||||| || ||||||||  | ||||||||| | |||||||||||||  || |||||||      | | || |   | || |     ||  |||    |||   | ||||||  || | |  |                                    
AATACTTTCCATAGATTCGATAAATTTAACTTAAAATACAATCCTTGTGGGCAAAGTAGGCTCCGAGAAATATTCTTGAAGCAGGACAATCTGATTCAAGgtatgttaatttctccgcctattctttcttctttttttttccatcattacgcttgc--tggtttacag-----------------------------------

upper sequence: PP1S77_89V6.1 (Physcomitrella patens), 5'ss of exon 9
lower sequence: EFJ30909 (Selaginella moellendorffii), 5'ss of exon 8
AATACATTTCACCGATTCGACAAGTTCAACTTGAAGTATAATCCTTGTGGCCAGAGTAGGCTAAGGGAAATATTCCTAAAGCAGGACAATCACATCCAAGgta-acgcgtctttcagggaagtcctcagaattagtttgaatctacatgcttgcgatgatgtgaaatcactcacaattattcgaatgatgttcacttttgc
||||| || ||  ||||||| || || ||||| || || ||||||||||| || ||||||||  | ||||||||| | |||||||||||||  || |||||||      | | || |   | || |     ||  |||  |||   | ||||||  || | |  |                                    
AATACTTTCCATAGATTCGATAAATTTAACTTAAAATACAATCCTTGTGGGCAAAGTAGGCTCCGAGAAATATTCTTGAAGCAGGACAATCTGATTCAAGgtatgttaatttctccgcctattctttcttctttttttccatcattacgcttgc--tggtttacag-----------------------------------

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|162171488|gb|FC346763.1|FC346763
EST:     CCAGAGTAGGCTAAGGGAAATATTCCTAAAGCAGGACAATCACATCCAAG                         GACGCTTCTTAGCAGAGTTGACTAAGGAAGTTTTCTCAGATCTTCAAGCAA
genomic: CCAGAGTAGGCTAAGGGAAATATTCCTAAAGCAGGACAATCACATCCAAGgtaacgcgtc ... cctgatacagGACGCTTCTTAGCAGAGTTGACTAAGGAAGTTTTCTCAGATCTTCAAGCAA