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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GACTTGCACCAAGTTATCAAAGCTAATGATGATTTGACCCCTGAGCATTATCAATTCTTTTTGTACCAGCTACTGAGGGCTCTCAAGTATATCCATACAGgtgggcgtcacattttgtagtgtattgactttcatttagttgtggagaatatttaacttgatcttcgtagggcttggtgtcagcaacctattccagctta...

Basic information

species Physcomitrella patens
transcript PP1S87_157V6.2
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S87_157V6.2 (Physcomitrella patens), 5'ss of exon 2
lower sequence: GRMZM2G089484_T01 (Zea mays), 5'ss of exon 2
GACTTGCACCAAGTTATCAAAGCTAATGATGATTTGACCCCTGAGCATTATCAATTCTTTTTGTACCAGCTACTGAGGGCTCTCAAGTATATCCATACAGgtgggcgtcacattttgtagtgtattgactttcatttagttgtggagaatatttaacttgatcttcgtagggcttggtgtcagcaacctattccagctta-
||  ||||||||||||| || ||||| ||||| |||||||| |||||||| || || || ||||| ||  | ||  | |   | || || || |||||||||    |      |||    || || |   |   | |   |||  | | |||   ||    |   | |  |   |||  |     ||||||   |    | 
GATCTGCACCAAGTTATAAAGGCTAACGATGACTTGACCCCAGAGCATTACCAGTTTTTCTTGTATCAATTGCTTCGAGGATTGAAATACATACATACAGgtaattgatttgctttcacatggatcgttatggttctttctgtatacattataatacgccgtagcc-tgtgatgtggaattctacacctatataaaaacaa

upper sequence: PP1S87_157V6.2 (Physcomitrella patens), 5'ss of exon 2
lower sequence: GLYMA13G28120.1 (Glycine max), 5'ss of exon 2
GACTTGCACCAAGTTATCAAAGCTAATGATGATTTGACCCCTGAGCATTATCAATTCTTTTTGTACCAGCTACTGAGGGCTCTCAAGTATATCCATACAGgtgggc---gtcacattttgtagtgtattgactttcatttagttgtggagaatatttaacttgatcttcgtag-ggcttggtgtcagcaacctattccagctta---------------------
|| || || || || |||||||||||||||||| |||| || |||||||| || || |||||||| ||||| ||  | |   | |||||||| |||||||||  |    |  |  |||  |||  |  |  || |    ||  | |  |     | |  | | |   | ||||     |  | | | ||   |     |  ||                      
GATTTACATCAGGTCATCAAAGCTAATGATGATCTGACACCAGAGCATTACCAGTTTTTTTTGTATCAGCTTCTTCGAGGCATGAAGTATATTCATACAGgttagttagggaatctttcttagattgcttgctgtagcatatatatatatttgttattgcataaaactagtagcaaaattatatgatcactatggctgattttgaacttcttaatggacttgtag

upper sequence: PP1S87_157V6.2 (Physcomitrella patens), 5'ss of exon 2
lower sequence: GLYMA07G38510.1 (Glycine max), 5'ss of exon 1
GACTTGCACCAAGTTATCAAAGCTAATGATGATTTGACCCCTGAGCATTATCAATTCTTTTTGTACCAGCTACTGAGGGCTCTCAAGTATATCCATACAGgt---gggcgtcacattttgtagtgtattgactttcatttagttgtggaga------atatttaacttgatcttcgtagggct-----tggtgtcagcaacctattccagctta--------------------------
|| || || || || |||||||| |||||||||||||| || ||||||||||| || ||| | || ||||| ||  | |   | |||||||| || ||||||   |  | | | |||| |     | ||   |||   ||  |  || ||       ||| ||||  |  | ||   |  |||     | |  |||       |||   ||| |                          
GATTTACATCAGGTCATCAAAGCAAATGATGATTTGACTCCAGAGCATTATCAGTTTTTTCTCTATCAGCTTCTTCGAGGCTTGAAGTATATACACACAGgttatgatctttatatttagctagtttttatttttagattcctaatgcagctttttcatagttaatgttttattataaaagctaattattgaatcacatgatcattgtggctgattttaaactttttaatgggtttgtag

upper sequence: PP1S87_157V6.2 (Physcomitrella patens), 5'ss of exon 2
lower sequence: GLYMA17G02220.1 (Glycine max), 5'ss of exon 2
GACTTGCACCAAGTTATCAAAGCTAATGATGATTTGACCCCTGAGCATTATCAATTCTTTTTGTACCAGCTACTGAGGGCTCTCAAGTATATCCATACAGgtgggcgtcacattttgtagt--gtattgactttcatttagttgtggaga-------atatttaacttgatcttcgtagggcttggtgtca----gca-acctattccagctta--------------------------
|| || || || || |||||||| |||||||||||||| || ||||||||||| || ||| | || ||||| ||  | |   | |||||||| ||   ||||     ||||  | | |||   || || | ||| |  |   |  ||          ||| ||||  |  | ||   || |||   | | |     ||     |||   ||| |                          
GATTTACATCAGGTCATCAAAGCAAATGATGATTTGACTCCAGAGCATTATCAGTTTTTTCTCTATCAGCTTCTTCGAGGCTTGAAGTATATACACCGAGgttatgatcactatatttagctagtttttatttttagattcctaaggcagctttttcatagttaatgttttattataagagctaattattaaatcacatgatcattgtggctgattttaaactttttaatgggtttgtag

upper sequence: PP1S87_157V6.2 (Physcomitrella patens), 5'ss of exon 2
lower sequence: AT1G18150.3 (Arabidopsis thaliana), 5'ss of exon 3
GACTTGCACCAAGTTATCAAAGCTAATGATGATTTGACCCCTGAGCATTATCAATTCTTTTTGTACCAGCTACTGAGGGCTCTCAAGTATATCCATACAGgtgggcgtcacattttgtagtgtattgactttcatttagttgtggagaatatttaacttgatcttcgtagggcttggtgtcagcaacctattccagctta
||  | || ||||| ||||| || |||||||||||||| |||||||||||||| || || ||||||||||| ||  | | ||| || ||| | ||  |||||  |  ||   ||||  |   |  |  |||||  |   |  ||     | ||  |  | || ||   |    |  | ||   |      || |||    
GATCTTCATCAAGTGATCAAGGCGAATGATGATTTGACTCCTGAGCATTATCAGTTTTTCTTGTACCAGCTTCTTCGTGGTCTGAAATATGTTCACGCAGgttagtttctggttttacacattggtctctttcgatcc-tcatgatttttgttatagataatattgaaacacttaagggttctctgt---tttcag----

upper sequence: PP1S87_157V6.2 (Physcomitrella patens), 5'ss of exon 2
lower sequence: AT1G73670.1 (Arabidopsis thaliana), 5'ss of exon 2
GACTTGCACCAAGTTATCAAAGCTAATGATGATTTGACCCCTGAGCATTATCAATTCTTTTTGTACCAGCTACTGAGGGCTCTCAAGTATATCCATACAGgtgggcgtcacattttgtagtgtattgactttcatttagttgtggagaatatttaacttgatcttcgtagggcttggtgtcagcaacctattccagctta
||  | || || ||||| ||||||||||||||||| || ||||||||| |||| || || ||||| ||||| ||  | | | | |||||| | ||| | |||  |  ||  |      ||| |     |||||| ||   |||    | |||   |   | |  | | || |||  || || |       || |||    
GATCTTCATCAGGTTATTAAAGCTAATGATGATTTAACTCCTGAGCATCATCAGTTTTTCTTGTATCAGCTTCTTCGTGGTTTGAAGTATGTTCATGCTGgttagtttctaa----acagtct-----ctttcacttg--tgttatcattatgatataaggttattgaagagctacgtctctgt--ttgtttgcag----

upper sequence: PP1S87_157V6.2 (Physcomitrella patens), 5'ss of exon 2
lower sequence: AT5G19010.1 (Arabidopsis thaliana), 5'ss of exon 2
GACTTGCACCAAGTTATCAAAGCTAATGATGATTTGACCCCTGAGCATTATCAATTCTTTTTGTACCAGCTACTGAGGGCTCTCAAGTATATCCATACAGgtgggcgtcacattttgtagtgtattgactttcatttagttgtggagaatatttaacttgatcttcgtagggcttggtgtcagcaacctattccagctta
|| ||||| || ||||| || || |||||||||||||| |||||||||||||| || ||  | || ||||| ||  | |  ||||||||||| || ||||||         |  | |      ||  | ||||||| | | ||  | | | | | | |   | |  | |     |  | |   |      || |||    
GATTTGCATCAGGTTATTAAGGCAAATGATGATTTGACTCCTGAGCATTATCAGTTTTTCCTCTATCAGCTTCTTCGTGGCCTCAAGTATATACACACAGgtta-------agctagcgagcaataaaatttcattgattagtata-agtttatgattatctttctgaaaatactttttttttctcttcctttcag----

upper sequence: PP1S87_157V6.2 (Physcomitrella patens), 5'ss of exon 2
lower sequence: Vv05s0020g02530.t01 (Vitis vinifera), 5'ss of exon 2
GACTTGCACCAAGTTATCAAAGCTAATGATGATTTGACCCCTGAGCATTATCAATTCTTTTTGTACCAGCTACTGAGGGCTCTCAAGTATATCCATACAGgt-gggcgtcac-attttgtagtgtattgactttcatttagttgtggagaatatttaact-tgatcttcgtagggcttggtgtcagca-acctattccagctta-------------------------------------------------------------------------
|| || ||||| ||||| ||||| |||||||||||||| || || ||||||||||| ||| | || ||||| ||| | |   | ||||| || || ||||||     |   | |   | | || | || |||||       | ||  || ||| || | |   ||||   |||    ||  |   |||    || |   | |||                                                                         
GATTTACACCAGGTTATTAAAGCAAATGATGATTTGACTCCAGAACATTATCAATTTTTTCTTTATCAGCTTCTGCGAGGCTTGAAGTACATACACACAGgttatatgatgctacaatattgtattttaactttttggccttggtttagcatactttattacaatctaattagcttgtgcagatggcatgagtaataatgtttataacttgaagtgggtgcccggatattcagtattccggtcctgattttgccatatttctttaattcttttgtag

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|162191647|gb|FC367692.1|FC367692
EST:     TCAATTCTTTTTGTACCAGCTACTGAGGGCTCTCAAGTATATCCATACAG                         CTAATGTATTTCATCGCGATCTCAAGCCAAAGAATGTATTGGCAAACGCTG
genomic: TCAATTCTTTTTGTACCAGCTACTGAGGGCTCTCAAGTATATCCATACAGgtgggcgtca ... gatgctttagCTAATGTATTTCATCGCGATCTCAAGCCAAAGAATGTATTGGCAAACGCTG
EST: gi|162257300|gb|FC433383.1|FC433383
EST:     TCAATTCTTTTTGTACCAGCTACTGAGGGCTCTCAAGTATATCCATACAG                         CTAATGTATTTCATCGCGATCTCAAGCCAAAGAATGTATTGGCAAACGCTG
genomic: TCAATTCTTTTTGTACCAGCTACTGAGGGCTCTCAAGTATATCCATACAGgtgggcgtca ... gatgctttagCTAATGTATTTCATCGCGATCTCAAGCCAAAGAATGTATTGGCAAACGCTG