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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGCGGACAATGCACCTGATTCGATGAAAGAGCAAAAATTTGAGAGCTACTTTGGTCGAAAAATAGCTATCGATGCCAGCATGAGCATCTACTCATTTCTTgtaagttttatgaagtctttattgaatggcgcaatccctcttacagcttctaattgcataagcgtaataattgcccggattggtcgcaggttgtgttttcaaacgattcgcgttccgtctatcgtgtatcgtgtccctcttccttcgtaatgatttattgcaaagtactacattgatttgatgctgttcttctgcag

Basic information

species Physcomitrella patens
transcript PP1S456_8V6.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S456_8V6.1 (Physcomitrella patens), 5'ss of exon 2
lower sequence: GLYMA10G28200.1 (Glycine max), 5'ss of exon 2
AGCGGACAATGCACCTGATTCGATGAAAGAGCAAAAATTTGAGAGCTACTTTGGTCGAAAAATAGCTATCGATGCCAGCATGAGCATCTACTCATTTCTTgtaagttttatgaagtctttattgaatggcgcaatccctcttacagcttctaattgcata-agcgtaataat-tgcccggattggtcgcaggttgtgttttcaaacgattcgcgttccgtctatcgtgtatcgtgtccctcttccttcgtaatgatttattgcaaagtactacattgatttgatgctgttcttctgcag
|||||||||||| ||  | || ||||| ||| | ||||| ||||||||||||||||| || || ||||| || || ||||||||||| |||   || ||||| |||  ||  |  |    |    ||| || | |  |  || || |    |     ||| || || || || |       ||  |  ||  |  | |||      ||||   || | |                                                                                
AGCGGACAATGCCCCGAAGTCCATGAAGGAGAACAAATTCGAGAGCTACTTTGGTCGCAAGATCGCTATTGACGCTAGCATGAGCATTTACCAGTTCCTTgtcagtgcta--atcttcacaacacatgacgtagtttcaatttcaaccatgatactaatacagtgtgattatgttaataacttaatgtcacatgttatttgtcttggattttggtgcag--------------------------------------------------------------------------------

upper sequence: PP1S456_8V6.1 (Physcomitrella patens), 5'ss of exon 2
lower sequence: AT5G26680.1 (Arabidopsis thaliana), 5'ss of exon 2
AGCGGACAATGCACCTGATTCGATGAAAGAGCAAAAATTTGAGAGCTACTTTGGTCGAAAAATAGCTATCGATGCCAGCATGAGCATCTACTCATTTCTTgtaagttttatgaagtctttattgaatggcgcaatccctcttacagcttctaattgcataagcgtaataattgcccggattggtcgcaggttgtgttttcaaacgattcgcgttccgtctatcgtgtatcgtgtccctcttccttcgtaatgatttattgcaaagtactacattgatttgatgctgttcttctgcag
||| |||||||| |||  ||  |||||||| || ||||| |||||||| |||||||| ||||| ||| | ||||| ||||||||||| |||  ||| || ||  ||         |||   ||| ||    ||||| |    |    |     ||   |||  ||  |        | ||  | | |||                                                                                                            
AGCCGACAATGCGCCTAGTTGTATGAAAGAACAGAAATTCGAGAGCTATTTTGGTCGGAAAATCGCTGTTGATGCTAGCATGAGCATTTACCAATTCCTCgttcgtgccccttcttctcctttgtat----caatctca---atgagtatagtttttgtaattgtggt-------tgaatgtgacacag------------------------------------------------------------------------------------------------------------

upper sequence: PP1S456_8V6.1 (Physcomitrella patens), 5'ss of exon 2
lower sequence: Vv14s0060g00210.t01 (Vitis vinifera), 5'ss of exon 2
AGCGGACAATGCACCTGATTCGATGAAAGAGCAAAAATTTGAGAGCTACTTTGGTCGAAAAATAGCTATCGATGCCAGCATGAGCATCTACTCATTTCTTgtaagttttatgaagtctttattgaatggcgcaatccctcttacagcttctaattgc-ataagcgtaataattgcccggattggtcgcaggttgtgttttcaaacgattcgcgttccgtctatcgtgtatcgtgtccctcttccttcgtaatgatttattgcaaagtactacattgatttgatgctgttcttctgcag
 || |||||||| ||  |  | ||||||||||| ||||| ||||||| ||| || || ||||| || || |||||||||||||||||||||   || || ||      |    | |||| | |   |  | | || | ||||   |  | || ||   ||        ||| ||| ||      | ||||                                                                                                            
GGCTGACAATGCCCCAAAGGCCATGAAAGAGCAGAAATTCGAGAGCTTCTTCGGCCGCAAAATCGCCATAGATGCCAGCATGAGCATCTACCAGTTCCTCgt-----ctgcacattcttcactctct--ctctatacgtctttttgtatatatttatgatttttaatttaaatgctcgtgcct-ttgcag------------------------------------------------------------------------------------------------------------

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|100384642|gb|BY950632.1|BY950632
EST:     TTGGTCGAAAAATAGCTATCGATGCCAGCATGAGCATCTACTCATTTCTT                         GTAGTCGTGGGACGAACTGGGACCGATATGCTTACAAATGACGCTGGAGAA
genomic: TTGGTCGAAAAATAGCTATCGATGCCAGCATGAGCATCTACTCATTTCTTgtaagtttta ... tcttctgcagGTAGTCGTGGGACGAACTGGGACCGATATGCTTACAAATGACGCTGGAGAA
EST: gi|162187474|gb|FC362696.1|FC362696
EST:     TTGGTCGAAAAATAGCTATCGATGCCAGCATGAGCATCTACTCATTTCTT                         GTAGTCGTGGGACGAACTGGGACCGATATGCTTACAAATGACGCTGGAGAA
genomic: TTGGTCGAAAAATAGCTATCGATGCCAGCATGAGCATCTACTCATTTCTTgtaagtttta ... tcttctgcagGTAGTCGTGGGACGAACTGGGACCGATATGCTTACAAATGACGCTGGAGAA