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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTTGAGCCAGAGGTTTGAGAGGCGAACATTTGCAGACCCTTTTGAGGTTTACAGGGCTCTGCGTATCGTAAATCCTAGTCCATACATGATCTACCTTCAGgtgtgtcacctgcctctcttaacatccttggaacatagcgtgaattaagtgtagtaaagtttactgtagaaaatgacgaagtgattacagctgttgcagt...

Basic information

species Physcomitrella patens
transcript PP1S154_130V6.1
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S154_130V6.1 (Physcomitrella patens), 5'ss of exon 7
lower sequence: LOC_Os03g61120.1 (Oryza sativa), 5'ss of exon 6
CTTGAGCCAGAGGTTTGAGAGGCGAACATTTGCAGACCCTTTTGAGGTTTACAGGGCTCTGCGTATCGTAAATCCTAGTCCATACATGATCTACCTTCAGgtgtgtcacctgcctctcttaacatccttggaa---catagcgtgaattaagtgtagtaaagtttactgtagaaaatgacgaagtgattacagc--tgttgcagt
||| |||||| | ||||||||||| |||||||| ||||| |||||||| ||| | ||  ||||||| || ||||||||||| || |||  ||| || ||||||   |   |   |    ||      ||| ||   | ||  || ||||| ||||  |        ||| | || |||    |     || |     ||  ||| 
CTTAAGCCAGCGTTTTGAGAGGCGGACATTTGCTGACCCCTTTGAGGTGTACCGTGCATTGCGTATTGTCAATCCTAGTCCTTATATGGCCTATCTACAGgtga--cgaatattttcagtactcctgttgaaatttcttatggtaaattatgtgtcatg-------ctgaacaacatgctttatatcctataatatcgtcacag-

upper sequence: PP1S154_130V6.1 (Physcomitrella patens), 5'ss of exon 7
lower sequence: LOC_Os03g15780.1 (Oryza sativa), 5'ss of exon 5
CTTGAGCCAGAGGTTTGAGAGGCGAACATTTGCAGACCCTTTTGAGGTTTACAGGGCTCTGCGTATCGTAAATCCTAGTCCATACATGATCTACCTTCAGgtgtgtc-acctgcctctcttaacatccttggaacatagcgtgaattaagtgtagtaaagtttactgtagaaaatgacgaagtgattaca-gctgttgcagt-------
 || |||||||||||||||||||||||||  ||  | || ||||| || ||  | ||| | || || || || || ||||||||||||   ||  | ||||| | |  ||      | ||||   |   ||| |  |      ||  |  ||||  | |   ||||  |     | | | | | || | |  || ||    |       
TTTAAGCCAGAGGTTTGAGAGGCGAACATACGCCAATCCATTTGAAGTCTATCGAGCTTTACGAATTGTGAACCCAAGTCCATACATGGCATATGTACAGgtatatttacactatgcgcttattttgactggtatctgtttctaac-atttgtataagataatactaaacgctcttatgta-taataatatactattatgatctcttag

upper sequence: PP1S154_130V6.1 (Physcomitrella patens), 5'ss of exon 7
lower sequence: AT5G05730.1 (Arabidopsis thaliana), 5'ss of exon 6
CTTGAGCCAGAGGTTTGAGAGGCGAACATTTGCAGACCCTTTTGAGGTTTACAGGGCTCTGCGTATCGTAAATCCTAGTCCATACATGATCTACCTTCAGgtgtgtcacct-----gcctctcttaacatccttggaacata---gcgtgaattaagtgt-agtaaagtttactgtagaaaatgacgaagtgattacagctgttgcagt
  |||| ||  | |||||| ||||||||||||||||||| ||||| ||||| || || ||  |  | || ||||| ||||| || |||   ||  | |||||  || |         | | ||| |||| | ||| |   |      ||| || ||   | | |   |||| |  |     ||   |                      
GCTGAGTCAACGTTTTGAGCGGCGAACATTTGCAGACCCCTTTGAAGTTTATAGAGCACTAAGAGTTGTGAATCCAAGTCCGTATATGGGTTATTTGCAGgttggtgatggagagaacatttctcaacaactttgcattttgtacttgtggataaaccatcaatgctgttttcgttctgttattcag----------------------

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|162229064|gb|FC405073.1|FC405073
EST:     CAGGGCTCTGCGTATCGTAAATCCTAGTCCATACATGATCTACCTTCAG                         GCACGGGGTGCCATAATGGTGGCTTCTAGTCCGGAGATACTTACCCGCATT
genomic: CAGGGCTCTGCGTATCGTAAATCCTAGTCCATACATGATCTACCTTCAGgtgtgtcacc ... tttgatgcagGCACGGGGTGCCATAATGGTGGCTTCTAGTCCGGAGATACTTACCCGCATT
EST: gi|162150977|gb|FC327873.1|FC327873
EST:     ACAGGGCTCTGCGTATCGTAAATCCTAGTCCATACATGATCTACCTTCAG                         GCACGGGGTGCCATAATGGTGGCTTCTAGTCCGGAGATACTTACCCGCATT
genomic: ACAGGGCTCTGCGTATCGTAAATCCTAGTCCATACATGATCTACCTTCAGgtgtgtcacc ... tttgatgcagGCACGGGGTGCCATAATGGTGGCTTCTAGTCCGGAGATACTTACCCGCATT