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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGAGTCTGTTGTGATAAGAGTAACCGGTTGTCCAAACGGCTGTGCAAGACCGTACATGGCTGAGCTCGGTCTAGTCGGGGATGGTCCCAACAGCTATCAGgtacggttggagcacaagctcttgttactagtgatgagacagtatagtagtaagcaagcaggctaatattctgagttgttgtcggttgtgcag

Basic information

species Arabidopsis thaliana
transcript AT5G04590.1
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G04590.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA11G09890.1 (Glycine max), 5'ss of exon 6
CGAGTCTGTTGTGATAAGAGTAACCGGTTGTCCAAACGGCTGTGCAAGACCGTACATGGCTGAGCTCGGTCTAGTCGGGGATGGTCCCAACAGCTATCAGgtacggttggagcacaagctcttgttactagtgatgagacagtatagtagtaagcaagcaggctaatattctgagttgttgtcggttgtgcag
 |||||||| ||  ||||  |||| || || || || || ||||| ||||| ||||||||||| || || ||||| || |||||||| || |||||||||||  | |  || ||  ||||       ||     |  || || | ||   | |  |      |   |   |||  || ||     |  |||||
TGAGTCTGTGGTTGTAAGGATAACTGGCTGCCCTAATGGTTGTGCTAGACCATACATGGCTGAACTTGGACTAGTTGGTGATGGTCCAAATAGCTATCAGgtttgtt--gatcagcagctgaacccgctgacagtt-gatagaaaagc--tcaatagattaccatgttcactgttttttttcttctgatgcag

upper sequence: AT5G04590.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA12G02200.1 (Glycine max), 5'ss of exon 6
CGAGTCTGTTGTGATAAGAGTAACCGGTTGTCCAAACGGCTGTGCAAGACCGTACATGGCTGAGCTCGGTCTAGTCGGGGATGGTCCCAACAGCTATCAGgtacggttggagcacaagctcttgttactagtgatgagacagtatagtagtaagcaagcaggctaatattctgagttgttgtcggttgtgcag
 |||||||| ||  ||||  |||| || || || || || ||||| ||||| |||||||||||||| || ||||| || ||||| || || |||||||||||  | |  || |   ||||    |  ||     || || || | ||    ||   |  |   |||| |||   ||| ||     |  |||||
TGAGTCTGTGGTTGTAAGGATAACTGGCTGCCCTAATGGTTGTGCTAGACCATACATGGCTGAGCTTGGACTAGTTGGTGATGGCCCAAATAGCTATCAGgtttgtt--gatctgcagctgaactcgctgacagtg-gatagaaaagct-caaaagacta---taatgttcactgttttttcttatgatgcag

upper sequence: AT5G04590.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: Vv06s0004g02330.t01 (Vitis vinifera), 5'ss of exon 6
CGAGTCTGTTGTGATAAGAGTAACCGGTTGTCCAAACGGCTGTGCAAGACCGTACATGGCTGAGCTCGGTCTAGTCGGGGATGGTCCCAACAGCTATCAGgtacggttggagcacaagctcttgttactagtgatgagacagtatagtagtaagcaagcaggctaatattctgagttgttgtcggttgtgcag--------------------------
 || ||||| || ||  | ||||| || || || || || ||||| ||||| |||||||| || || || || ||||| ||||||||||||||||||||||||   ||  | |||   ||    | | |    |    ||  |  ||  ||     |     ||  ||  |    | |       ||   |                            
TGAATCTGTGGTTATTCGGGTAACTGGCTGCCCTAATGGTTGTGCGAGACCTTACATGGCCGAACTTGGACTTGTCGGTGATGGTCCCAACAGCTATCAGgta--attaaaccactgactgcattgaatttaaaaagaactatgaagaggttgattactgcccttttagacaatatgggatatatttacactaaaatatttgttatggttttcaaacag

upper sequence: AT5G04590.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: PP1S47_171V6.2 (Physcomitrella patens), 5'ss of exon 4
CGAGTCTGTTGTGATAAGAGTAACCGGTTGTCCAAACGGCTGTGCAAGACCGTACATGGCTGAGCTCGGTCTAGTCGGGGATGGTCCCAACAGCTATCAGgtacggttgg-agcacaagctcttgttactagtgatgagacag-tatagtagtaagcaagcaggctaata--ttctgagt-tgttgtcggttgtgcag------------------------
 |||||  | ||| |  |  | || || || || || || |||||||| ||||||||||| ||||| ||  |||| || ||||| ||||||||||| ||||||   ||   | |     |     ||| |  ||     |||| |||| | | | |  |      |      || |||||  |   |   | ||   |                        
AGAGTCCCTGGTGGTTCGCATTACTGGCTGCCCTAATGGTTGTGCAAGGCCGTACATGGCAGAGCTTGGATTAGTTGGCGATGGACCCAACAGCTACCAGgtataatttccaactttgacaaaaattattgttgccttaacagctatatttgcatgataatgctatggccacttttgagtacgacttgaatggtttggtgcatttctgttttctctctgtag

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|116451400|gb|EG493992.1|EG493992
EST:     CGTACATGGCTGAGCTCGGTCTAGTCGGGGATGGTCCCAACAGCTATCAG                         GTTTGGCTAGGAGGAACACCTAACCTGACCCAAATAGCGAGAAGTTTCATG
genomic: CGTACATGGCTGAGCTCGGTCTAGTCGGGGATGGTCCCAACAGCTATCAGgtacggttgg ... ggttgtgcagGTTTGGCTAGGAGGAACACCGAACCTGACCCAGATAGCGAGAAGTTTCATG
EST: gi|125264883|gb|EL278968.1|EL278968
EST:     CCCAACAGCTATCAG                         GTTTGGCTAGGAGGAACACCGAACCTGACCCAGATAGCGAGAAGTTTCATG
genomic: CCCAACAGCTATCAGgtacggttgg ... ggttgtgcagGTTTGGCTAGGAGGAACACCGAACCTGACCCAGATAGCGAGAAGTTTCATG
EST: gi|125198318|gb|EL213272.1|EL213272
EST:     CGTACATGGCTGAGCTCGGTCTAGTCGGGGATGGTCCCAACAGCTATCAG                         GTTTGGCTAGGAGGAACACCGAACCTGACCCAGATAGCGAGAAGTTTCA
genomic: CGTACATGGCTGAGCTCGGTCTAGTCGGGGATGGTCCCAACAGCTATCAGgtacggttgg ... ggttgtgcagGTTTGGCTAGGAGGAACACCGAACCTGACCCAGATAGCGAGAAGTTTCA
EST: gi|125280839|gb|EL294924.1|EL294924
EST:     CGTACATGGCTGAGCTCGGTCTAGTCGGGGATGGTCCCAACAGCTATCAG                         GTTTGGCTAGGAGGAACACCGAACCTGAC
genomic: CGTACATGGCTGAGCTCGGTCTAGTCGGGGATGGTCCCAACAGCTATCAGgtacggttgg ... ggttgtgcagGTTTGGCTAGGAGGAACACCGAACCTGAC
EST: gi|125162596|gb|EL189366.1|EL189366
EST:     CAACAGCTATCAG                         GTTTGGCTAGGAGGAACACCGAACCTGACCCAGATAGCGAGAAGTTTCATG
genomic: CAACAGCTATCAGgtacggttgg ... ggttgtgcagGTTTGGCTAGGAGGAACACCGAACCTGACCCAGATAGCGAGAAGTTTCATG
EST: gi|125224402|gb|EL238487.1|EL238487
EST:     CTGAGCTCGGTCTAGTCGGGGATGGTCCCAACAGCTATCAG                         GTTTGGCTAGGAGGAACACCGAACCTGACCCAGATAGCGAGAAGTTTCATG
genomic: CTGAGCTCGGTCTAGTCGGGGATGGTCCCAACAGCTATCAGgtacggttgg ... ggttgtgcagGTTTGGCTAGGAGGAACACCGAACCTGACCCAGATAGCGAGAAGTTTCATG
EST: gi|124707177|gb|EH798579.1|EH798579
EST:     AGCTCGGTCTAGTCGGGGATGGTCCCAACAGCTATCAG                         GTTTGGCTAGGGGGAACACCGAACCTGACCCAGATAGCGAGAAGTTTCATG
genomic: AGCTCGGTCTAGTCGGGGATGGTCCCAACAGCTATCAGgtacggttgg ... ggttgtgcagGTTTGGCTAGGAGGAACACCGAACCTGACCCAGATAGCGAGAAGTTTCATG
EST: gi|124798852|gb|EH888531.1|EH888531
EST:     CG-ACATGGCTGAGCTCGGTCTAGTCGGGGATGGTCCCAACAGCTATCAG                         GTTTGGCTAGGAGGAAC
genomic: CGTACATGGCTGAGCTCGGTCTAGTCGGGGATGGTCCCAACAGCTATCAGgtacggttgg ... ggttgtgcagGTTTGGCTAGGAGGAAC