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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