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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGAGTACAGGGTGTTGATGTTGGGACGTGTATTGGGAGGCATCGCCACATCACTGCTTTTCTCTTCATTTGAGTCCTGGCTTGTTGCTGAGCATTTTAAGgttacctgagtctctaactattttaggttttctttgtgacgcggatcattctctctgcaagtacatacaacaagtaattgattttatggctgaagataaaatggtgttttactgaatcattgtgcgtatgtgtatgtgtatttgtatgtcgaatttaaaactcattgacggtgatttctacttgtcgtcaatacag

Basic information

species Physcomitrella patens
transcript PP1S18_8V6.1
intron # 4
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 3
lower sequence: Vv16s0098g01290.t01 (Vitis vinifera), 5'ss of exon 3
AGAGTACAGGGTGTTGATGTTGGGACGTGTATTGGGAGGCATCGCCACATCACTGCTTTTCTCTTCATTTGAGTCCTGGCTTGTTGCTGAGCATTTTAAGgttac---ctgagtctctaact---attttaggttttctttgtgacg-cggatcattctctctgcaagtacatacaacaagtaattgattttatggctgaagataaaatggtgttttactgaatcattgtgcgtatgtgtatgtgtatttgtatgtcgaatttaaaactcattgacggtgatttctacttgtcgtcaatacag
  |||||||  | || ||| |||| ||||| |||||||| |||||||| || || || || ||  |||||||||| ||||||||||| |||||    ||||| |     ||   || |  |    || |||   | | || |||    |  ||   |||  |      || ||  |  || |  || |||    || | |                                                                                                       
TCAGTACAGAATTTTAATGGTGGGGCGTGTGTTGGGAGGTATCGCCACTTCTCTCCTGTTTTCAGCATTTGAGTCATGGCTTGTTGCCGAGCACAACAAGgtgagatgttgtcgctttgtccttaatcttaaaatatattagtgctaacaaatttatcttgcatttgttaaattgattaactgtttaattgggcggatca-------------------------------------------------------------------------------------------------------

upper sequence: PP1S18_8V6.2 (Physcomitrella patens), 5'ss of exon 3
lower sequence: EFJ21113 (Selaginella moellendorffii), 5'ss of exon 3
AGAGTACAGGGTGTTGATGTTGGGACGTGTATTGGGAGGCATCGCCACATCACTGCTTTTCTCTTCATTTGAGTCCTGGCTTGTTGCTGAGCATTTTAAGgttacctgagtctctaactattttaggttttctttgtgacgcggatcattctctctgcaagtacatacaacaagtaattgattttatggctgaagataaaatggtgttttactgaatcattgtgcgtatgtgtatgtgtatttgtatgtcgaatttaaaactcattgacggtgatttctacttgtcgtcaatacag
  ||| |   ||  | ||| ||||| |  |  | || || || || || || || || |||||  |||||||||| ||||| ||||||||||| |||||||||   ||  | | | | ||  || | || |||     ||     || ||  ||  ||    |  |   |                                                                                                                              
TCAGTTCCAAGTTCTCATGGTGGGAAGAATTCTTGGTGGAATTGCTACCTCGCTCCTGTTCTCGGCATTTGAGTCGTGGCTAGTTGCTGAGCACTTTAAGgtt-tgtggatttgtcagtacgttggattgtctg-acaactttcttctttaacttcgctgtgattttttag-----------------------------------------------------------------------------------------------------------------------------

upper sequence: PP1S18_8V6.2 (Physcomitrella patens), 5'ss of exon 3
lower sequence: EFJ11977 (Selaginella moellendorffii), 5'ss of exon 3
AGAGTACAGGGTGTTGATGTTGGGACGTGTATTGGGAGGCATCGCCACATCACTGCTTTTCTCTTCATTTGAGTCCTGGCTTGTTGCTGAGCATTTTAAGgttacctgagtctctaactattttaggttttctttgtgacgcggatcatt---ctctctgcaagtacatacaacaagtaattgattttatggctgaagataaaatggtgttttactgaatcattgtgcgtatgtgtatgtgtatttgtatgtcgaatttaaaactcattgacggtgatttctacttgtcgtcaatacag
  ||| |   ||  | ||| ||||| |  |  | || || || || || || || || |||||  |||||||||| ||||| ||||||||||| |||||||||   ||  | | | | ||  || | || |||     ||     || ||    ||||||  | |   ||                                                                                                                                 
TCAGTTCCAAGTTCTCATGGTGGGAAGAATTCTTGGTGGAATTGCTACCTCGCTCCTGTTCTCGGCATTTGAGTCGTGGCTAGTTGCTGAGCACTTTAAGgtt-tgtggatttgtcagtacgttggattgtctg-acaactttcttctttaacttctctgtgattttttag--------------------------------------------------------------------------------------------------------------------------------

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|162268232|gb|FC444521.1|FC444521
EST:     CACTGCTTTTCTCTTCATTTGAGTCCTGGCTTGTTGCTGAGCATTTTAAG                         AGAGGTTTTGAGGCACAGTGGTTGTCATTGACTTTCTCCAAGGCTATATTC
genomic: CACTGCTTTTCTCTTCATTTGAGTCCTGGCTTGTTGCTGAGCATTTTAAGgttacctgag ... gtcaatacagAGAGGTTTTGAGGCACAGTGGTTGTCATTGACTTTCTCCAAGGCTATATTC