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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTTCTGGAGACATCAAGGAAAGGCTATCTCGCTGCTATCTCTGCTTCGAGTTACTCCTTTGTTTCCTTGCTGAGGCATTTTCTGCCAATTATGAACCCAGgcatgtaacaaatttcgtatgtctctttattccttgtaaatatgttttcttatttggttctctatgatgatttag

Basic information

species Arabidopsis thaliana
transcript AT2G05990.2
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G05990.2 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GRMZM2G125052_T01 (Zea mays), 5'ss of exon 6
CTTCTGGAGACATCAAGGAAAGGCTATCTCGCTGCTATCTCTGCTTCGAGTTACTCCTTTGTTTCCTTGCTGAGGCATTTTCTGCCAATTATGAACCCAGgcatgtaacaaatttcgtatgtctct-ttattccttgtaaatatgttttcttatttggttctctatgatgatttag------------------------
 |  ||||||||||||| | ||||||||| || || || || || ||||||||||||| |||||| |||||   |||||| || || || |||||||| || |   |          || ||   |  ||     || | ||       |  | ||         |  ||||| ||                        
TTGTTGGAGACATCAAGAAGAGGCTATCTTGCGGCAATTTCAGCATCGAGTTACTCCTATGTTTCATTGCTTCAGCATTTCCTTCCTATAATGAACCCCGgtagtcaggggcgaagctaggtagatgctagggggtgcatatgcacccgcgaaattttacaaaactactgattcagactagatttttaccatatatgcac

upper sequence: AT2G05990.2 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA11G10770.1 (Glycine max), 5'ss of exon 8
CTTCTGGAGACATCAAGGAAAGGCTATCTCGCTGCTATCTCTGCTTCGAGTTACTCCTTTGTTTCCTTGCTGAGGCATTTTCTGCCAATTATGAACCCAGgcatgtaacaaatttcgt--atgtctctttattccttgtaaatatgttttcttatttggttctctatgatgatttag--------------
 |  ||||||||||  ||||||| ||||| ||||| || ||||| || |||||||||| |||||| || || | ||||||||| |||||  |||||||||||||||  |  || |  |  | |    |  |||   |      ||  || |  || |  || | | |  |  |||                
TTGTTGGAGACATCTCGGAAAGGATATCTTGCTGCAATATCTGCATCTAGTTACTCCTATGTTTCTTTACTCAAGCATTTTCTTCCAATCTTGAACCCAGgcatgtctcttatcttattaaagggcttccattatatcacttcatacttccgcatatcattttatcttttacttttatgatttgtttttag

upper sequence: AT2G05990.2 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA12G03060.1 (Glycine max), 5'ss of exon 9
CTTCTGGAGACATCAAGGAAAGGCTATCTCGCTGCTATCTCTGCTTCGAGTTACTCCTTTGTTTCCTTGCTGAGGCATTTTCTGCCAATTATGAACCCAGgcatgtaacaaatttcgt------atgtctctt-tattccttgtaaatatgttttcttatttggttctcta---tgatgatttag------
 |  ||||||||||  |||| || ||||| ||||| || ||||| || |||||||| | |||||| || || | ||||||||| |||||  ||||||||||||||   |  || |  |       | ||  || |||| |||   | |      | | ||||  |  | ||   | |||||||        
TTGTTGGAGACATCTCGGAATGGGTATCTTGCTGCAATATCTGCATCTAGTTACTCATATGTTTCTTTACTCAAGCATTTTCTTCCAATCTTGAACCCAGgcatgcctcttatcttattaccgggtttccattatattacttcatacttccacctatcattttatcttttacttttatgatttgtttttag

upper sequence: AT2G05990.2 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: Vv08s0007g06390.t01 (Vitis vinifera), 5'ss of exon 8
CTTCTGGAGACATCAAGGAAAGGCTATCTCGCTGCTATCTCTGCTTCGAGTTACTCCTTTGTTTCCTTGCTGAGGCATTTTCTGCCAATTATGAACCCAGgcatgtaacaaatttcgtatgtctctttattccttgtaaatatgttttcttatttggttctctatgatgatttag-----------------------------------------------------------------------------------
|| |||||||||||||| || || ||||| || ||||| ||||| || ||||| ||||||||||| ||||| | |||||| || ||||| ||||| ||||| || |  |  ||| | | |   | |||  || ||  || | | | ||  | |    || ||| |  |  |                                                                                       
CTCCTGGAGACATCAAGAAAGGGATATCTTGCAGCTATTTCTGCATCAAGTTATTCCTTTGTTTCTTTGCTCAAGCATTTCCTCCCAATAATGAATCCAGgtatatttcctattcccttt--ttgttttgtcttttcaagtttttcttgctttcaatttatctttattcttcctcttttgtttttcccctcaaatcttcacaatgtgccatgaatcaatgttattggcagaatttaagcttcggtcttgattttacag

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|125246086|gb|EL260171.1|EL260171
EST:     TTACTCCTTCGTTTCCTTGCTGAGGCATTTTCTGCCAATTATGAACCCAG                         GAGGTGCTTCAATATCTCTTACTTACATTGCCTCTGAAA
genomic: TTACTCCTTTGTTTCCTTGCTGAGGCATTTTCTGCCAATTATGAACCCAGgcatgtaaca ... gatgatttagGAGGTGCTTCAATATCTCTTACTTACATTGCCTCTGAAA
EST: gi|125108107|gb|EL161163.1|EL161163
EST:     TACTCCTTTGTTTCCTTGCTGAGGCATTTTCTGCCAATTATAGAACCCAG                         GAGGTGCTTCAATATCTCT
genomic: TACTCCTTTGTTTCCTTGCTGAGGCATTTTCTGCCAATTAT-GAACCCAGgcatgtaaca ... gatgatttagGAGGTGCTTCAATATCTCT
EST: gi|47829300|gb|CK118984.1|CK118984
EST:     TTACTCCTTTGTTTCCTTGCTGAGGCATTTTCTGCCAATTATGAACCCAG                         GAGGTGCTTCAATATCTCTTACTTACATTGCCTCTGAAAGAATCATTCCTG
genomic: TTACTCCTTTGTTTCCTTGCTGAGGCATTTTCTGCCAATTATGAACCCAGgcatgtaaca ... gatgatttagGAGGTGCTTCAATATCTCTTACTTACATTGCCTCTGAAAGAATCATTCCTG