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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACTATGGCTTGGATTTTGGACGAGTACTCGAAATTTCATGGGTATACTCCGGCCGTCGTAACTGGTAAACCGGTGgtaagttaatgtctcctaccaaaaactgtgtacagcttaaccgcttgttcagatgtttgaatgactatccctttcctacgattgatccttttcttttactttcatgaag

Basic information

species Physcomitrella patens
transcript PP1S62_236V6.4
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S62_236V6.1 (Physcomitrella patens), 5'ss of exon 5
lower sequence: LOC_Os04g45970.1 (Oryza sativa), 5'ss of exon 4
ACTATGGCTTGGATTTTGGACGAGTACTCGAAATTTCATGGGTATACTCCGGCCGTCGTAACTGGTAAACCGGTGgtaagttaatgtctcctaccaaaaactgtgtacagcttaaccgcttgttcagatgtttgaatgactatccctttcctacgattgatccttttcttttactttcatgaag
|| ||||||||||||||||| |||||||||||||| |||||  || | ||||| || || ||||| || ||  | ||||||          ||| | | |      ||| |  ||   || |||    ||| | ||| || ||     |||   |||||    ||   | ||  | |  |    
ACCATGGCTTGGATTTTGGATGAGTACTCGAAATTCCATGGTCATTCACCGGCAGTTGTCACTGGGAAGCCAATAGTAAgta---------tactataca------acaacacaaat-ctagtt----tgtgtaaataacaatttacatccagtgattgtattttgnatatttttgttgtag--

upper sequence: PP1S62_236V6.1 (Physcomitrella patens), 5'ss of exon 5
lower sequence: Vv16s0039g02750.t01 (Vitis vinifera), 5'ss of exon 4
ACTATGGCTTGGATTTTGGACGAGTACTCGAAATTTCATGGGTATACTCCGGCCGTCGTAACTGGTAAACCGGTGgtaagttaatgtctcctaccaaaaactgtgtacagcttaacc--gcttgttcagatgtttgaa--tgactatccc--tttcctacgattgatccttttcttttactttcatgaag--------------
|||||||| |||||||||||||||||||| ||||| |||||  |  | |||||||| || ||||| || ||  | ||||||     | | | || |||||| | | |    | |       ||||  | |  ||||||   ||  | |    |||   ||  ||| | ||| |  |||    ||||  |               
ACTATGGCATGGATTTTGGACGAGTACTCAAAATTCCATGGTCACTCACCGGCCGTAGTGACTGGAAAGCCAATAgtaagt----atttgcgacaaaaaaccgagcatctatgatttagatttgtgtaaacctttgaagtcgagaaacaaaatttgtaactgttgtttcttgttctttggactcatttacatttgggcttttag

upper sequence: PP1S62_236V6.1 (Physcomitrella patens), 5'ss of exon 5
lower sequence: Vv16s0039g02720.t01 (Vitis vinifera), 5'ss of exon 4
ACTATGGCTTGGATTTTGGACGAGTACTCGAAATTTCATGGGTATACTCCGGCCGTCGTAACTGGTAAACCGGTGgtaagttaatgtctcctaccaaaaactgtgtacagcttaaccg--cttgttcagatgtttgaa--tgactatccc-tttcctacgattgatccttttcttttactttcatgaag--------------
|||||||| |||||||| ||||||||||| ||||| |||||  |  | ||||| || || ||||| || ||  | ||||||     | | | || |||||| | | |    | |       ||||  | |  ||||||  |||  | |   |||   ||  ||| | ||| |  | |    ||||  |               
ACTATGGCATGGATTTTCGACGAGTACTCAAAATTCCATGGTCACTCACCGGCTGTAGTGACTGGAAAGCCAATAgtaagt----atttgcgacaaaaaaccgagcatctatgatttagatttgtgtaaacctttgaagttgagaaacgaatttgtaactgttgtttcttgttctgtggcctcatttacatttgggcttttag

upper sequence: PP1S62_236V6.1 (Physcomitrella patens), 5'ss of exon 5
lower sequence: EFJ06181 (Selaginella moellendorffii), 5'ss of exon 4
ACTATGGCTTGGATTTTGGACGAGTACTCGAAATTTCATGGGTATACTCCGGCCGTCGTAACTGGTAAACCGGTGgtaagttaatgtctcctaccaaaaactgtgtacagcttaaccgcttgttcagatgtttgaatgactatccctttcctacgattgatccttttcttttactttcatgaag
|| |||||||||||| |||| |||||||| || |||||||||||  |||| || || || ||||| || ||  | ||||| |  | | |  |    |  | |   |    | |      |||||      | | |                                                 
ACCATGGCTTGGATTCTGGATGAGTACTCCAAGTTTCATGGGTACTCTCCAGCAGTAGTCACTGGAAAGCCACTTgtaagcttgtttttttttatgatcatttgatttgtcctctgatattgtttttgcttctcag------------------------------------------------

upper sequence: PP1S62_236V6.1 (Physcomitrella patens), 5'ss of exon 5
lower sequence: EFJ36430 (Selaginella moellendorffii), 5'ss of exon 4
ACTATGGCTTGGATTTTGGACGAGTACTCGAAATTTCATGGGTATACTCCGGCCGTCGTAACTGGTAAACCGGTGgtaagttaatgtctcctaccaaaaactgtgtacagcttaaccgcttgttcagatgtttgaatgactatccctttcctacgattgatccttttcttttactttcatgaag
|| |||||||||||| |||| |||||||| || |||||||||||  |||| || || || ||||| || ||  | ||||| |  | | || | |  |  | |   |    | |      |||||      | | |                                                 
ACCATGGCTTGGATTCTGGATGAGTACTCCAAGTTTCATGGGTACTCTCCAGCAGTAGTCACTGGAAAGCCACTTgtaagcttgtttttctttctgattatttgatttgtcctctgatattgtttttgcttctcag------------------------------------------------

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|162176130|gb|FC351079.1|FC351079
EST:     ACTCGAAATTTCATGGGTATACTCCGGCCGTCGTAACTGGTAAACCGGTG                         GACTTGGGAGGGTCTCTTGGGCGGGAAGCTGCCACTGGAAGAGGTGTGCTA
genomic: ACTCGAAATTTCATGGGTATACTCCGGCCGTCGTAACTGGTAAACCGGTGgtaagttaat ... tttcatgaagGACTTGGGAGGGTCTCTTGGGCGGGAAGCTGCCACTGGAAGAGGTGTGCTA
EST: gi|162253971|gb|FC430215.1|FC430215
EST:     ACTCGAAATTTCATGGGTATACTCCGGCCGTCGTAACTGGTAAACCGGTG                         GACTTGGGAGGGTCTCTTGGGCGGGAAGCTGCCACTGGAAGAGGTGTGCTA
genomic: ACTCGAAATTTCATGGGTATACTCCGGCCGTCGTAACTGGTAAACCGGTGgtaagttaat ... tttcatgaagGACTTGGGAGGGTCTCTTGGGCGGGAAGCTGCCACTGGAAGAGGTGTGCTA
EST: gi|67573617|gb|BJ946441.1|BJ946441
EST:     ACTCGAAATTTCATGGGTATACTCCGGCCGTCGTAACTGGTAAACCGGTG                         GACTTGGGAGGGTCTCTTGGGCGGGAAGCTGCCACTGGAAGAGGTGTGCTA
genomic: ACTCGAAATTTCATGGGTATACTCCGGCCGTCGTAACTGGTAAACCGGTGgtaagttaat ... tttcatgaagGACTTGGGAGGGTCTCTTGGGCGGGAAGCTGCCACTGGAAGAGGTGTGCTA
EST: gi|100396442|gb|BY990131.1|BY990131
EST:     ACTCGAAATTTCATGGGTATACTCCGGCCGTCGTAACTGGTAAACCGGTG                         GACTTGGGAGGGTCTCTTGGGCGGG
genomic: ACTCGAAATTTCATGGGTATACTCCGGCCGTCGTAACTGGTAAACCGGTGgtaagttaat ... tttcatgaagGACTTGGGAGGGTCTCTTGGGCGGG
EST: gi|162194068|gb|FC370243.1|FC370243
EST:     ACTCGAAATTTCATGGGTATACTCCGGCCGTCGTAACTGGTAAACCGGTG                         GACTTGGGAGGGTCTCTTGGGCGGGAAGCTGCCACTGGAAGAGGTGTGCTA
genomic: ACTCGAAATTTCATGGGTATACTCCGGCCGTCGTAACTGGTAAACCGGTGgtaagttaat ... tttcatgaagGACTTGGGAGGGTCTCTTGGGCGGGAAGCTGCCACTGGAAGAGGTGTGCTA
EST: gi|162275836|gb|FC451397.1|FC451397
EST:     ACTCGAAATTTCATGGGTATACTCCGGCCGTCGTAACTGGTAAACCGGTG                         GACTTGGGAGGGTCTCTTGGGCGGGAAGCTGCCACTGGAAGAGGTGTGCTA
genomic: ACTCGAAATTTCATGGGTATACTCCGGCCGTCGTAACTGGTAAACCGGTGgtaagttaat ... tttcatgaagGACTTGGGAGGGTCTCTTGGGCGGGAAGCTGCCACTGGAAGAGGTGTGCTA
EST: gi|162162143|gb|FC337717.1|FC337717
EST:     ACTCGAAATTTCATGGGTATACTCCGGCCGTCGTAACTGGTAAACCGGTG                         GACTTGGGAGGGTCTCTTGNGCGGGAAGCTGCCACTGGAAGAGGTGTGCTA
genomic: ACTCGAAATTTCATGGGTATACTCCGGCCGTCGTAACTGGTAAACCGGTGgtaagttaat ... tttcatgaagGACTTGGGAGGGTCTCTTGGGCGGGAAGCTGCCACTGGAAGAGGTGTGCTA
EST: gi|162151269|gb|FC327723.1|FC327723
EST:     ACTCGAAATTTCATGGGTATACTCCGGCCGTCGTAACTGGTAAACCGGTG                         GACTTGGGAGGGTCTCTTGGGCGGGAAGCTGCCACTGGAAGAGGTGTGCTA
genomic: ACTCGAAATTTCATGGGTATACTCCGGCCGTCGTAACTGGTAAACCGGTGgtaagttaat ... tttcatgaagGACTTGGGAGGGTCTCTTGGGCGGGAAGCTGCCACTGGAAGAGGTGTGCTA