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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAAAATGAGGTCCCAGTATATCCCTGAAGAGTCGAGGAGCACAATCATGAATTTTTTCCGGATTCCTTTGAACGTATTTGTGTGTGTTGTACTGTACAATgtaagccactacttctttagaaaaatactttctttgtcgctttttctttattctgggaataacaaagataggaagttactattggaagttgtcagatgagactgagttttcaacagatttctgacttctcttttggtttgttgttggctccttcag

Basic information

species Physcomitrella patens
transcript PP1S18_8V6.1
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S18_8V6.2 (Physcomitrella patens), 5'ss of exon 6
lower sequence: LOC_Os10g37520.1 (Oryza sativa), 5'ss of exon 6
GAAAATGAGGTCCCAGTATATCCCTGAAGAGTCGAGGAGCACAATCATGAATTTTTTCCGGATTCCTTTGAACGTATTTGTGTGTGTTGTACTGTACAATgtaagccactacttctttagaaaaatactttctttgtcgctttttctttattctgggaataacaaa--gataggaagttactattggaagttgtcagatgagactgagttttcaacagatttctgacttctcttttggtttgttgttggctccttcag
||| ||||||||||||||||| ||||| ||| | || ||||| |||||||| || ||||| || ||  | ||| | ||||| ||||| || || |||||||||||   |||            ||| |    | |||   |||||||||||   |  ||||||| |   | | | |  | | | || ||      | |  ||||     |  ||  |   ||   |     |   || | |  ||  |          
GAAGATGAGGTCCCAGTATATTCCTGAGGAGGCAAGAAGCACGATCATGAACTTCTTCCGCATACCACTCAACCTGTTTGTTTGTGTGGTTCTTTACAATgtaagtagcta------------aatccaacttctgtttttttttctttat---gaaaataacacaccaacaagcaaatgcaaatgcaaaa----aaaaaagacatttgtcccagtaacatt--aatcatacaaatgatgttctgcag----------

upper sequence: PP1S18_8V6.2 (Physcomitrella patens), 5'ss of exon 6
lower sequence: LOC_Os03g02380.1 (Oryza sativa), 5'ss of exon 6
GAAAATGAGGTCCCAGTATATCCCTGAAGAGTCGAGGAGCACAATCATGAATTTTTTCCGGATTCCTTTGAACGTATTTGTGTGTGTTGTACTGTACAATgtaagccactacttctttagaaaaatactttctttgtcgctttttctttattctgggaataacaaagataggaagttactattggaagttgtcagatgagactgagttttcaacagatttctgacttctcttttggtttgttgttggctccttcag
||| ||||| || || ||||| ||||| ||| | || ||||||||||||||||| ||||| || ||  ||||| | ||||| ||||| || || |||||||||||  |     |  |||   ||    | || |  |     | | || |||          |||| |||  |  ||  | |  ||| ||  |||                                                             
GAAGATGAGATCTCAATATATTCCTGAGGAGGCAAGAAGCACAATCATGAATTTCTTCCGCATACCACTGAACTTGTTTGTTTGTGTGGTGCTTTACAATgtaagtgaaagtgttcttactgaa----tctcatgattctaatctgttgatttc-----cttcaaaaataacatttttttctgtgaattttgcag-------------------------------------------------------------

upper sequence: PP1S18_8V6.2 (Physcomitrella patens), 5'ss of exon 6
lower sequence: GRMZM2G077669_T01 (Zea mays), 5'ss of exon 6
GAAAATGAGGTCCCAGTATATCCCTGAAGAGTCGAGGAGCACAATCATGAATTTTTTCCGGATTCCTTTGAACGTATTTGTGTGTGTTGTACTGTACAATgtaagccactacttctttagaaaaatactttctttgtcgctttttctttattctgggaataacaaagataggaagttactattggaagttgtcagatgagactgagttttcaacagatttctgacttctcttttggtttgttgttggctccttcag
||| |||||||| ||||| || ||||| ||  | || ||||||||||||||||| ||||| || ||  | ||| ||||||| ||||| || || |||||||||||     | | | |     ||   |          |  | | |   | | |  | |   ||    ||  |  || |   |||| ||||||   ||                                                          
GAAGATGAGGTCTCAGTACATTCCTGAGGAAGCAAGAAGCACAATCATGAATTTCTTCCGCATCCCGCTCAACTTATTTGTTTGTGTGGTGCTTTACAATgtaaggagtcattccctcgtccaatggcaa--------gaatatacagaaatatcagca---cacgagtaacactttgcctgtggacgttgtcttttgcag-------------------------------------------------------

upper sequence: PP1S18_8V6.2 (Physcomitrella patens), 5'ss of exon 6
lower sequence: GLYMA04G41090.1 (Glycine max), 5'ss of exon 6
GAAAATGAGGTCCCAGTATATCCCTGAAGAGTCGAGGAGCACAATCATGAATTTTTTCCGGATTCCTTTGAACGTATTTGTGTGTGTTGTACTGTACAATgtaagccac-tacttctttagaaaaatactttctttgtcgctttttctttattctgggaataacaaagataggaagttacta-ttggaagttgtcagatgagactgagttttcaacagatttctgacttctcttttggtttgttgttggctccttcag
||| ||||| || || || || ||||| ||| | |||||||| |||||||| |||||||| |||||| ||||| | |||||||||||||| |||||||||||| |  ||  | |    ||    |||||  |    |    |     | || |       |   |    |  |   | |||| |||    || ||   ||   | |                                                    
GAAGATGAGATCTCAATACATTCCTGAGGAGGCCAGGAGCACCATCATGAACTTTTTCCGCATTCCTCTGAACATTTTTGTGTGTGTTGTGCTGTACAATgtatgttacacaatctactacttcaatacaatgcgcgatcttaacagtgtagtagtattttcttatgcgtgtgctttgactaattgtgtattttct--tggtgcag----------------------------------------------------

upper sequence: PP1S18_8V6.2 (Physcomitrella patens), 5'ss of exon 6
lower sequence: GLYMA06G13760.1 (Glycine max), 5'ss of exon 6
GAAAATGAGGTCCCAGTATATCCCTGAAGAGTCGAGGAGCACAATCATGAATTTTTTCCGGATTCCTTTGAACGTATTTGTGTGTGTTGTACTGTACAATgtaagccactacttctttagaaaaatactttctttgtcgctttttctttattctgggaataacaaagataggaagttactattggaagttgtcagatgagactgagttttcaacagatttctgacttctcttttggtttgttgttggctccttcag
||| ||||| || || || || ||||| ||| | |||||||| |||||||| |||||||| |||||| | ||| | |||||||||||||| |||||||||||| |  ||           | ||     | |||    ||  |  ||| |   |   |||  ||    ||     |||    |||   |    |  || |  |   || || |   |                                       
GAAGATGAGATCTCAATACATTCCTGAGGAGGCCAGGAGCACCATCATGAACTTTTTCCGCATTCCTCTCAACATTTTTGTGTGTGTTGTGCTGTACAATgtatgttac-----------acaatctactacttcaatgcaatg-cttgagcttaccaatg-cagtagtattttcttatctctggttttgactaattgtg--tattttctcgatgcag--------------------------------------

upper sequence: PP1S18_8V6.2 (Physcomitrella patens), 5'ss of exon 6
lower sequence: AT4G27720.1 (Arabidopsis thaliana), 5'ss of exon 6
GAAAATGAGGTCCCAGTATATCCCTGAAGAGTCGAGGAGCACAATCATGAATTTTTTCCGGATTCCTTTGAACGTATTTGTGTGTGTTGTACTGTACAATgtaagccactacttctttagaaaaatactttctttgtcgctttttctttattctgggaataacaaagata-ggaagttacta-ttggaagttgtcagatgagactgagttttcaacagatttctgacttctcttttggtttgttgttggctccttcag
||| ||||| ||||| || ||||| |||||  | || |||||||| ||||| |||||||| |||||| ||||  | ||||| || |||||| ||||||||||||| | |  |  | ||       | |   | | || |||     ||  |        |  |   | |  || | | |||| ||  | ||  || || |                                                          
GAAGATGAGATCCCAATACATCCCAGAAGAAGCCAGAAGCACAATAATGAACTTTTTCCGCATTCCTCTGAATATCTTTGTCTGCGTTGTATTGTACAATgtaagtccccccaacattctttttctgcac-catagtagctgagatttcgtgtcccatgtctctgtgttgtggtactgactagttttatgtgctctgaag----------------------------------------------------------

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|162188273|gb|FC364767.1|FC364767
EST:     ATTTTTTCCGGATTCCTTTGAACGTATTTGTGTGTGTTGTACTGTACAAT                         GTCAGTGCATTCCCTATCAGTGTGATGTTTGGAATGTGCGCAATATTTCTG
genomic: ATTTTTTCCGGATTCCTTTGAACGTATTTGTGTGTGTTGTACTGTACAATgtaagccact ... gctccttcagGTCAGTGCATTCCCTATCAGTGTGATGTTTGGAATGTGCGCAATATTTCTG
EST: gi|208372439|gb|DC952283.1|DC952283
EST:     ATTTTTTCCGGATTCCTTTGAACGTATTTGTGTGTGTTGTACTGTACAAT                         GTCAGTGCATTCCCTATCAGTGTGATGTTTGGAATGTGCGCAATATTTCTG
genomic: ATTTTTTCCGGATTCCTTTGAACGTATTTGTGTGTGTTGTACTGTACAATgtaagccact ... gctccttcagGTCAGTGCATTCCCTATCAGTGTGATGTTTGGAATGTGCGCAATATTTCTG
EST: gi|67694445|gb|BJ954678.1|BJ954678
EST:     ATTTTTTCCGGATTCCTTTGAACGTATTTGNGTGTGTTGTACTGTACAAT                         GTCAGTGCATTCCCTATCAGTGTGATGTTNGGAATGTGCGCAATATTTCTG
genomic: ATTTTTTCCGGATTCCTTTGAACGTATTTGTGTGTGTTGTACTGTACAATgtaagccact ... gctccttcagGTCAGTGCATTCCCTATCAGTGTGATGTTTGGAATGTGCGCAATATTTCTG
EST: gi|162268231|gb|FC444520.1|FC444520
EST:     ATTTTTTCCGGATTCCTTTGAACGTATTTGTGTGTGTTGTACTGTACAAT                         GTCAGTGCATTCCCTATCAGTGTGATGTTTGGAATGTGCGCAATATTTCTG
genomic: ATTTTTTCCGGATTCCTTTGAACGTATTTGTGTGTGTTGTACTGTACAATgtaagccact ... gctccttcagGTCAGTGCATTCCCTATCAGTGTGATGTTTGGAATGTGCGCAATATTTCTG