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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGTGAGGACGCCCCTATCGATGCAGTTCTTTCCTCGCTTCTTTTTTCTCTATTTCATGGCTTTCCACATTTACTTCTTCTCTTATACCTACGgtaaatttctttatcagcttcctatttcacctctgtgtttgcttttcttccttagcagtaatttgattgttgctgtgctgttgcttaaagttcatctatt...

Basic information

species Physcomitrella patens
transcript PP1S96_202V6.1
intron # 13
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S96_202V6.1 (Physcomitrella patens), 5'ss of exon 13
lower sequence: LOC_Os03g45770.2 (Oryza sativa), 5'ss of exon 11
CGTGAGGACGCCCCTATCGATGCAGTTCTTTCCTCGCTTCTTTTTTCTCTATTTCATGGCTTTCCACATTTACTTCTTCTCTTATACCTACGgtaaatttctttatcagcttcctatttcacctctgtgtttgcttttcttccttagcagtaatttgattgttgctgtgctgttgcttaaagttcatctatt
 ||||||||  |  |||| ||||||||||| || ||||| || || || |||||| ||| ||||||||||||||||||||| || || || ||||    |   |||  |  |  |   | |||| | |          || |   |  |     | |||   ||   |||   |   |  | || |||    
TGTGAGGACATCTATATCAATGCAGTTCTTCCCGCGCTTTTTCTTGCTGTATTTCTTGGTTTTCCACATTTACTTCTTCTCGTACACATATGgtatgactacatat--gtctttttggtgacctatattggcaagaaactactggaatatcctatcgatatatgacttgcatatttctgta-tttatcag--

upper sequence: PP1S96_202V6.1 (Physcomitrella patens), 5'ss of exon 13
lower sequence: GRMZM5G814310_T01 (Zea mays), 5'ss of exon 3
CGTGAGGACGCCCCTATCGATGCAGTTCTTTCCTCGCTTCTTTTTTCTCTATTTCATGGCTTTCCACATTTACTTCTTCTCTTATACCTACGgtaaatttctttatcagcttcctatttcacctctgtgtttgcttttcttccttagcagtaatttgattgttgctgtgctgttgcttaaagttcatctatt
 ||| ||||  || ||||||||||||||||||| |||||||| || || |||||  ||| |||||| || ||||||||||| |||||||| ||||  | | | |||||   | || |||      | ||  ||   |  |   | |  | | |    |||  ||  |   | |  ||||   || | |    
TGTGCGGACATCCATATCGATGCAGTTCTTTCCACGCTTCTTCTTGCTGTATTTTTTGGTTTTCCATATCTACTTCTTCTCATATACCTATGgta--tgtgtgtatcaaacttcttttt------tctgactgaactattgattaactaatgacac-atttctggcgctttatgacttatgctttaccag--

upper sequence: PP1S96_202V6.1 (Physcomitrella patens), 5'ss of exon 13
lower sequence: GLYMA15G05080.1 (Glycine max), 5'ss of exon 12
CGTGAGGACGCCCCTATCGATGCAGTTCTTTCCTCGCTTCTTTTTTCTCTATTTCATGGCTTTCCACATTTACTTCTTCTCTTATACCTACGgtaaatttctttatcagcttcctatttcacctctgtgtttgcttttcttccttagcagtaatttgattgttgctgtgctgttgcttaaagttcatctatt
 ||  | || ||  |||| ||| |||||||||||||||||||||| || |||||| |||  |||||||| || |||||||||||| | |||||||   |  |  |     || ||||||    |  || |  | |  | |   || | | ||||  | || |   | | | |                    
TGTCCGAACACCAATATCAATGAAGTTCTTTCCTCGCTTCTTTTTGCTGTATTTCCTGGTCTTCCACATATATTTCTTCTCTTATGCTTACGgtatggtcat--actgtttttctatttg---ttggtttaagttaatttcatttggaaataatgagttt-taaattttcag--------------------

upper sequence: PP1S96_202V6.1 (Physcomitrella patens), 5'ss of exon 13
lower sequence: GLYMA08G19970.1 (Glycine max), 5'ss of exon 12
CGTGAGGACGCCCCTATCGATGCAGTTCTTTCCTCGCTTCTTTTTTCTCTATTTCATGGCTTTCCACATTTACTTCTTCTCTTATACCTACGgtaaatttctttatcagcttcctatttcacctctgtgtttgcttttcttccttagcagtaatttgattgttgctgtgctgttgcttaaagttcatctatt
 ||  | || ||  |||| ||| |||||||||||||||||||||| || |||||| |||  |||||||| || |||||||||||| | || ||||  ||  |  |  |  || ||||||          |||| |||  ||   |     |||||| ||| | |   |  ||    ||||| |||       
TGTCCGAACACCAATATCAATGAAGTTCTTTCCTCGCTTCTTTTTGCTGTATTTCCTGGTCTTCCACATATATTTCTTCTCTTATGCTTATGgtatgttcgt--actatttttctattt----------tttggtttagttggcttaagttaatttcatt-tggaaataatgagttttaaatttccag----

upper sequence: PP1S96_202V6.1 (Physcomitrella patens), 5'ss of exon 13
lower sequence: Vv12s0034g02140.t01 (Vitis vinifera), 5'ss of exon 12
CGTGAGGACGCCCCTATCGATGCAGTTCTTTCCTCGCTTCTTTTTTCTCTATTTCATGGCTTTCCACATTTACTTCTTCTCTTATACCTACGgtaaatttctttatcagcttcctatttcacctctgtgtttgcttttcttccttagcagtaatttgattgttgctgtgctgttgcttaaagttcatctatt
 ||  | || ||  |||||||| |||||||||||||||||||||| ||||||||  ||| ||||||||| || ||||| |||||| | || ||||     | |||| |  || || ||||   | |   |    |||   |  ||   | |||||       ||||   ||  |  || |            
TGTCCGCACTCCTATATCGATGAAGTTCTTTCCTCGCTTCTTTTTGCTCTATTTTCTGGTTTTCCACATCTATTTCTTTTCTTATGCTTATGgtaggg--ccttataa--ttactgtttcttatttagctagaatttatatgtttcatattaattcc----ctgctccacttatttttcag-----------

upper sequence: PP1S96_202V6.1 (Physcomitrella patens), 5'ss of exon 13
lower sequence: EFJ29169 (Selaginella moellendorffii), 5'ss of exon 12
CGTGAGGACGCCCCTATCGATGCAGTTCTTTCCTCGCTTCTTTTTTCTCTATTTCATGGCTTTCCACATTTACTTCTTCTCTTATACCTACGgtaaatttctttatcagcttcctatttcacctctgtgtttgcttttcttccttagcagtaatttgattgttgctgtgctgttgcttaaagttcatctatt
 || || ||     | || |||||||  |||||||| || || |||||||| |||||||  || ||||| ||||||||||||||||| |||||||   ||    |    |||  ||   ||   |||   ||| | | |||  | ||                                             
TGTCAGAACCAGAATCTCAATGCAGTATTTTCCTCGATTTTTCTTTCTCTACTTCATGgtgtttcacatctacttcttctcttatacatacggtatgattgcaaactcactt--tagcacattgctgaacttg-tctcctttttcag---------------------------------------------

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|162162209|gb|FC337991.1|FC337991
EST:     TTTTCTCTATTTCATGGCTTTCCACATTTACTTCTTCTCTTATACCTACG                         GTTTCTCGTATCTGGCCTTCTCAGCAACTGCTGCATTTATGCAGCATCTTG
genomic: TTTTCTCTATTTCATGGCTTTCCACATTTACTTCTTCTCTTATACCTACGgtaaatttct ... atgtggccagGTTTCTCGTATCTGGCCTTCTCAGCAACTGCTGCATTTATGCAGCATCTTG
EST: gi|162153810|gb|FC329941.1|FC329941
EST:     TTTTCTCTATTTCATGGCTTTCCACATTTACTTCTTCTCTTATACCTACG                         GTTTCTCGTATCTGGCCTTCTCAGCAACTGCTGCATTTATGCAGCATCTTG
genomic: TTTTCTCTATTTCATGGCTTTCCACATTTACTTCTTCTCTTATACCTACGgtaaatttct ... atgtggccagGTTTCTCGTATCTGGCCTTCTCAGCAACTGCTGCATTTATGCAGCATCTTG
EST: gi|162167081|gb|FC342543.1|FC342543
EST:     TTTTCTCTATTTCATGGCTTTCCACATTTACTTCTTCTCTTATACCTACG                         GTTTCTCGTATCTGGCCTTCTCAGCAACTGCTGCATTTATGCAGCATCTTG
genomic: TTTTCTCTATTTCATGGCTTTCCACATTTACTTCTTCTCTTATACCTACGgtaaatttct ... atgtggccagGTTTCTCGTATCTGGCCTTCTCAGCAACTGCTGCATTTATGCAGCATCTTG