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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAATTATCATCAGACTCTTCTCAGCACGTCAGATCTGCATTGGCATCAGTTATAATGGGAATGGCTCCAGTCTTGGGTAAGgtaagcagaattaaaaaccgatacaatttgcctctcatatcatgaatactgtcatctatacaaaaattcatttggctctatagtttggagtgtaagctca...

Basic information

species Arabidopsis thaliana
transcript AT1G13320.1
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G13320.2 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: LOC_Os09g07510.1 (Oryza sativa), 5'ss of exon 7
GAATTATCATCAGACTCTTCTCAGCACGTCAGATCTGCATTGGCATCAGTTATAATGGGAATGGCTCCAGTCTTGGGTAAGgtaagcagaattaaaaaccgatacaatttgcctctcatatcatgaatactgtcatctatacaaaaattcatttggctctatagtttgg-agtgtaagctca--------------------------------------------
||||| |||||||| || |||||||| ||  | || || ||||| |||||||| ||||||||||| || |||||||| ||||| |  || |  | |     ||| |||||  || | | || ||  | | | |  | | | ||| |  |    ||  ||  | ||||   |   |    |||                                            
GAATTGTCATCAGATTCATCTCAGCATGTTCGTTCAGCTTTGGCTTCAGTTATTATGGGAATGGCCCCGGTCTTGGGAAAGgtcacaagcaaaatatcttcataaaattttact-tgaaataattcaaattatt-tgtttgcaacagctttactg-ttcagttgtttactaccattgcttcacgattgttggaaacctgacttgctttgtttctggcattctgtag

upper sequence: AT1G13320.2 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GRMZM2G102858_T01 (Zea mays), 5'ss of exon 7
GAATTATCATCAGACTCTTCTCAGCACGTCAGATCTGCATTGGCATCAGTTATAATGGGAATGGCTCCAGTCTTGGGTAAGgtaagcagaattaaaaaccgatacaatttgcctctcatatcatgaatactgtcatctatacaaaaattcatttggct-ctatagtttggagtgtaagctca
|||||||||||||| || |||||||| ||  | || || |||||||| ||||| |||||||||||||| || ||||| |||||  | ||   ||  |    || |||| |  |  |   ||    || | |    |  |  ||  | |    || | | |  |   |     |||||     
GAATTATCATCAGATTCATCTCAGCATGTTCGTTCAGCTTTGGCATCGGTTATTATGGGAATGGCTCCTGTATTGGGAAAGgtgtg-agctctagcagtgaatgcaatatatcagtttgatggaaaaaattactcttcagtcatcagtagtgttagttaccgtttctcctgttgtaatgggg

upper sequence: AT1G13320.2 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA10G42250.1 (Glycine max), 5'ss of exon 7
GAATTATCATCAGACTCTTCTCAGCACGTCAGATCTGCATTGGCATCAGTTATAATGGGAATGGCTCCAGTCTTGGGTAAGgtaagcagaattaaaaaccgat----acaatt-tgcctctcatatcatgaatac-tgtcatctata-caaaaattcatttggctctatagtttggagtgtaagctca
||||| |||||||| ||||||||||| ||| | ||||| ||||| ||||| |||||||||||||||||||| ||||| ||||||   ||  | | | | |  |     || || |   ||||    || ||||||   | |||| || ||  || |  |||||  ||  ||   ||    |   |   
GAATTGTCATCAGATTCTTCTCAGCATGTCCGGTCTGCTTTGGCTTCAGTAATAATGGGAATGGCTCCAGTGTTGGGAAAGgtata-agtgtcagatatcagtttctgcagttattgttctctagacaggaatacacattatctgtatcatgaagttgtttggggcttgag---ggcccttgtac---

upper sequence: AT1G13320.2 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA20G24790.1 (Glycine max), 5'ss of exon 7
GAATTATCATCAGACTCTTCTCAGCACGTCAGATCTGCATTGGCATCAGTTATAATGGGAATGGCTCCAGTCTTGGGTAAGgtaagcagaattaaaaaccgat----acaatt-tgcctctcatatcatgaatac-tgtcatctatacaaaaattcatttggctctatagtttggagtgtaagctca
||||| |||||||| ||||| ||||| ||| | ||||| ||||| ||||| |||||||||||||||||||| ||||| ||||||   ||  | ||| | |  |     || || |   ||||    ||  |||||   | |||  ||  |  |     |    ||| | |||||| |  | ||    
GAATTGTCATCAGATTCTTCACAGCATGTCCGGTCTGCTTTGGCTTCAGTAATAATGGGAATGGCTCCAGTGTTGGGAAAGgtata-agtgtcaaatatctgtttctgcagttattgttctctagacagaaatacacattatcggtatcatgaa--ggtgaaatctgttgtttggggcttgagg---

upper sequence: AT1G13320.2 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: Vv01s0011g03280.t01 (Vitis vinifera), 5'ss of exon 6
GAATTATCATCAGACTCTTCTCAGCACGTCAGATCTGCATTGGCATCAGTTATAATGGGAATGGCTCCAGTCTTGGGTAAGgtaagcagaattaaaaaccgataca-atttgcctctcatatcatgaatactgtcatctatacaaaaattcatttggctctatagtttggagtgtaagctca------
||||| |||| ||| || || ||||| ||| | ||||| ||||| |||||| |||||||||||||||| ||||| || ||||||   ||| || | ||  | |    | ||| | |   ||  | |||     ||||| |||    | ||||||    |  |  | ||| ||   |   |||      
GAATTGTCATTAGATTCGTCCCAGCATGTCCGCTCTGCCTTGGCTTCAGTTTTAATGGGAATGGCTCCCGTCTTAGGAAAGgta---agacttcataatggttgtgcagttgacacagttaa-aggaaaggattcatcaata-gtcatttcattca--tggaagggttgaagacaattgtcatggttg

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|116425639|gb|EG468231.1|EG468231
EST:     GATCTGCATTGGCATCAGTTATAATGGGAATGGCTCCAGTCTTGGGTAAG                         GATGCAACAATTGAGCATCTTCTTCCAATCTTTCTTTCTCTATTGAAAGAC
genomic: GATCTGCATTGGCATCAGTTATAATGGGAATGGCTCCAGTCTTGGGTAAGgtaagcagaa ... ttcatttcagGATGCAACAATTGAGCATCTTCTTCCAATCTTTCTTTCTCTATTGAAAGAC