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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTCCAGTATCTTTGACGCCAATGCTGGTATTGGATTGAGCAAGTCCTTTGTGAAACTTGTCTCTTGGTACGACAACGAATGGGGTTACAGgtacacttttgtttctcatcttatatttctcatcctagctaacagttctaacacttaaaaatcttctcccattttacttacag

Basic information

species Arabidopsis thaliana
transcript AT1G79530.1
intron # 13
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G79530.1 (Arabidopsis thaliana), 5'ss of exon 13
lower sequence: LOC_Os02g07490.1 (Oryza sativa), 5'ss of exon 13
GTCCAGTATCTTTGACGCCAATGCTGGTATTGGATTGAGCAAGTCCTTTGTGAAACTTGTCTCTTGGTACGACAACGAATGGGGTTACAGgtacacttttgt-ttctcat-------ctta--tatttctcatcctagctaacagttctaaca-cttaaaaatcttctcccatt-ttacttacag
||| || |||||||| ||||| |||||||||||| ||||| ||||| |||| ||||| || ||||| |||||||| ||||| ||||||| | | | || ||| |||| | || || | | | || |||||| | ||| || | | ||||| || || |||
GTCAAGCATCTTTGATGCCAAGGCTGGTATTGGACTGAGCTCTTCCTTCATGAAGCTTGTGTCATGGTATGACAACGAGTGGGGCTACAGgtgagtgtctatatttccattaaggggcttaactcttcatctttttttccaattgttctattgtcctaatgattctgttccattctttgtttcag

upper sequence: AT1G79530.1 (Arabidopsis thaliana), 5'ss of exon 13
lower sequence: LOC_Os06g45590.1 (Oryza sativa), 5'ss of exon 13
GTCCAGTATCTTTGACGCCAATGCTGGTATTGGATTGAGCAAGTCCTTTGTGAAACTTGTCTCTTGGTACGACAACGAATGGGGTTACAGgtacacttttgtttctcatcttatatttctcatcctagctaacagttct-aacacttaaaaatcttctcccattttacttacag----------------------------------------------------------------------------------------------------
||| || || ||||| ||||| ||||| ||||| || || || || |||| || |||||||||||||||||||| ||||| ||||||| | | || | || | | |||| | | || | | || || | ||| | | | | |
GTCTAGCATATTTGATGCCAAGGCTGGAATTGGCTTAAGTTCTTCTTTCATGAAGCTCGTCTCTTGGTACGACAACGAGTGGGGCTACAGgtgagcatccacttaatggcataa------cgccttagccagcccttttcagaacctattcgttttcctgattactgcagaaactgaatgtttcatacgcaactcgtgtgttccaaatggtgccttgcatgtattttttccatctatctttatctgacctgaagattttgtttctttgctccag

upper sequence: AT1G79530.1 (Arabidopsis thaliana), 5'ss of exon 13
lower sequence: GRMZM2G104632_T01 (Zea mays), 5'ss of exon 13
GTCCAGTATCTTTGACGCCAATGCTGGTATTGGATTGAGCAAGTCCTTTGTGAAACTTGTCTCTTGGTACGACAACGAATGGGGTTACAGgtacacttttg----tttctcatcttatatttctcatcctagctaacagttctaacact-taaaaatcttctcccattttacttacag
||| || |||||||| ||||| |||||||||||| ||||| ||||| |||| || || |||||||| |||||||| ||||| |||||||| || | ||| | || || | | || ||| | || || || ||| | | || | ||||
GTCAAGCATCTTTGATGCCAAGGCTGGTATTGGACTGAGCTCTTCCTTCATGAAGCTCGTGTCTTGGTATGACAACGAGTGGGGCTACAGgtaggagttcgctactttgtttcgttgcgttatttgttgaagggtacaccttccacgctgctaagatcatttgtttgctt--tgacag

upper sequence: AT1G79530.1 (Arabidopsis thaliana), 5'ss of exon 13
lower sequence: PP1S57_242V6.1 (Physcomitrella patens), 5'ss of exon 11
GTCCAGTATCTTTGACGCCAATGCTGGTATTGGATTGAGCAAGTCCTTTGTGAAACTTGTCTCTTGGTACGACAACGAATGGGGTTACAGgt----acacttttgtttctcatc-ttatatttctcatcctagctaacagttctaacacttaaaaatcttctcc-------cattttacttacag-------------------------------------------
||||| ||||| || ||||| || || |||| || | ||| ||| ||||| || ||||| |||||||||||||||||||| ||||||| | | | | |||| || | | | | || | | | | | | | || ||| | |||| | | || |
ATCCAGCATCTTCGATGCCAAAGCAGGAATTGCCTTAAACAATAACTTCGTGAAGCTGGTCTCGTGGTACGACAACGAATGGGGCTACAGgtgataagatctaagcttcttccggctacttgttcgctgcgaggcagctcatgttaagcgttaagttctgcattatagaaacattctcttcactgaatacttgtatcgtgttccttacatgaccactgtttgttgcag

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|86075867|gb|DR371624.1|DR371624
EST:     AAGTCCTTTGTGAAACTTGTCTCTTGGTACGACAACGAATGGGGTTACAG                         CAACCGAGTTCTTGACCTTATAGAGCACATGGCTTTGGTAGCTGCCAGCCA
genomic: AAGTCCTTTGTGAAACTTGTCTCTTGGTACGACAACGAATGGGGTTACAGgtacactttt ... ttacttacagCAACCGAGTTCTTGACCTTATAGAGCACATGGCTTTGGTAGCTGCCAGCCA
EST: gi|86077225|gb|DR372982.1|DR372982
EST:     AAGTCCTTTGTGAAACTTGTCTCTTGGTACGACAACGAATGGGGTTACAG                         CAACCGAGTTCTTGACCTTATAGAGCACATGGCTTTGGTAGCTGCCAGCCA
genomic: AAGTCCTTTGTGAAACTTGTCTCTTGGTACGACAACGAATGGGGTTACAGgtacactttt ... ttacttacagCAACCGAGTTCTTGACCTTATAGAGCACATGGCTTTGGTAGCTGCCAGCCA
EST: gi|86082375|gb|DR378134.1|DR378134
EST:     AAGTCCTTTGTGAAACTTGTCTCTTGGTACGACAACGAATGGGGTTACAG                         CAACCGAGTTCTTGACCTTATAGAGCACATGGCTTTGGTAGCTGCCAGCCA
genomic: AAGTCCTTTGTGAAACTTGTCTCTTGGTACGACAACGAATGGGGTTACAGgtacactttt ... ttacttacagCAACCGAGTTCTTGACCTTATAGAGCACATGGCTTTGGTAGCTGCCAGCCA
EST: gi|124917387|gb|EH991261.1|EH991261
EST:     AAGTCCTTTGTGAAACTTGTCTCTTGGTACGACAACGAATGGGGTTACAG                         CAACCGAGTTCTTGACCTTATAGAGCACATGGCTTTGGTAGCTGCCAG
genomic: AAGTCCTTTGTGAAACTTGTCTCTTGGTACGACAACGAATGGGGTTACAGgtacactttt ... ttacttacagCAACCGAGTTCTTGACCTTATAGAGCACATGGCTTTGGTAGCTGCCAG
EST: gi|164090236|gb|EL986357.1|EL986357
EST:     AAGTCCTTTGTGAAACTTGTCTCTTGGTACGACAACGAATGGGGTTACAG                         CAACCGAGTTCTTGACCTTATAGAGCACATGGCT
genomic: AAGTCCTTTGTGAAACTTGTCTCTTGGTACGACAACGAATGGGGTTACAGgtacactttt ... ttacttacagCAACCGAGTTCTTGACCTTATAGAGCACATGGCT