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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGTCTGCTGTTGGGTTCAAACTAGACAGTCTCCTTAAATTATCTGATACTCGTGCTAGAAATAACAAAATGACTTTGATGCATTACTTATGCAAGgtatcaattttctaatcactatttcaagagcgcatctttgtgctagaagtgcatcatactgtttatgcagttagttgtctaaggtgctgtttgaagatgaacttaataccttatttcctttctactgtttag

Basic information

species Arabidopsis thaliana
transcript AT1G31810.1
intron # 13
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G31810.1 (Arabidopsis thaliana), 5'ss of exon 13
lower sequence: LOC_Os10g02980.1 (Oryza sativa), 5'ss of exon 9
GGTCTGCTGTTGGGTTCAAACTAGACAGTCTCCTTAAATTATCTGATACTCGTGCTAGAAATAACAAAATGACTTTGATGCATTACTTATGCAAGgtatcaattttctaat----cactatttcaagagcgcatctttgtgc-tagaagtgcatcatactgtttatgcagttagttgtctaaggtgctgtttgaagatgaacttaataccttatttcctttctactgtttag
| ||||| ||||| |||| | |||||||||| ||||||||||| |||||||| |||||||| ||||| |||||  | |||||||| |||||||||||||  | ||   | |     | |  |   |      |   |||||    |||||   |||   | ||  ||  |  | |     ||  |    ||  ||| |                                  
GATCTGCGGTTGGCTTCAGATTAGACAGTCTTCTTAAATTATCAGATACTCGAGCTAGAAACAACAAGATGACACTAATGCATTATTTATGCAAGgtatgcacttggcagtgaggaagtgctattaacatatactgttgtgtgctgaagtttctca-gtttttggtgtggagaatacctcaaaata--attcaaagtt----------------------------------

upper sequence: AT1G31810.1 (Arabidopsis thaliana), 5'ss of exon 13
lower sequence: GRMZM2G043530_T01 (Zea mays), 5'ss of exon 9
GGTCTGCTGTTGGGTTCAAACTAGACAGTCTCCTTAAATTATCTGATACTCGTGCTAGAAATAACAAAATGACTTTGATGCATTACTTATGCAAGgtatcaattttctaatcactatttcaagagcgcatctttgtgctagaagtgcatcatactgtttatgcagttagttgtctaaggtgctgtttgaagatgaacttaataccttatttcctttctactgtttag
| ||||||||||| |||| | ||||||| ||||||||  | || ||||||||  ||||||| || ||||||||  |||||||||| |||||||||||||  | ||   | | |   ||   | |    ||  |  ||| | | |   ||||    ||| ||  | |||   || |    | |||    || |     |  ||||                       
GATCTGCTGTTGGCTTCAGATTAGACAGCCTCCTTAAGCTGTCGGATACTCGATCTAGAAACAATAAAATGACGCTGATGCATTATTTATGCAAGgtattcacttgtcactgagatttgttataa-atatactgctgccacacgcttatca----gttaatcaacttacaggtgtttactactg----aacacatgttacatac-----------------------

upper sequence: AT1G31810.1 (Arabidopsis thaliana), 5'ss of exon 13
lower sequence: GLYMA04G14770.1 (Glycine max), 5'ss of exon 13
GGTCTGCTGTTGGGTTCAAACTAGACAGTCTCCTTAAATTATCTGATACTCGTGCTAGAAATAACAAAATGACTTTGATGCATTACTTATGCAAGgtatcaattttctaatcactatttcaagagcgcatctttgtgctagaagtgcatcatactgtttatgcagttagttgtctaaggtgctgtttgaagatgaacttaataccttatttcctttctactgtttag
| || |||||||| |||||| | || || || ||||||||||||||||||||||| |||||||||||||||||||| |||||||| || || ||||||   ||       |||  || |  | |    || | ||   |  |     ||  ||   ||||   || ||||||| |    | ||       | | ||  ||| | |||  |                 
GATCAGCTGTTGGATTCAAATTGGATAGCCTTCTTAAATTATCTGATACTCGTGCAAGAAATAACAAAATGACTTTAATGCATTATTTGTGTAAGgtagatat------gtcaaaatcttcaaattatat-tctgcatttaac---tattgtatc-ttta---agctagttgtgttctttactacccagtg-taaatataaaaacttcgt-----------------

upper sequence: AT1G31810.1 (Arabidopsis thaliana), 5'ss of exon 13
lower sequence: GLYMA09G34830.1 (Glycine max), 5'ss of exon 13
GGTCTGCTGTTGGGTTCAAACTAGACAGTCTCCTTAAATTATCTGATACTCGTGCTAGAAATAACAAAATGACTTTGATGCATTACTTATGCAAGgtatcaattttctaatcactatttcaagagcgcatctttgtgctagaagtgcatcatactgtttatgcagttagttgtctaaggtgctgtttgaagatgaactta-ataccttatttcctttctactgtttag
| || |||||||| |||||| | || || || ||||||||||||||||| ||||| |||||||||||||||||||| |||||||| || || ||||||   ||       |||  || |  | |    || || |   |  |     ||  ||   |||| | |||| || ||||    | |    || | ||  ||| | |||                        
GATCAGCTGTTGGATTCAAATTGGATAGCCTTCTTAAATTATCTGATACCCGTGCAAGAAATAACAAAATGACTTTAATGCATTATTTGTGTAAGgtagatat------gtcaaaatcttcaaattatat-ttagcatttaac---tattgtatcttttacgtagtt-gtggtcttttatacccagtgtaaatatactcagataaa----------------------

upper sequence: AT1G31810.1 (Arabidopsis thaliana), 5'ss of exon 13
lower sequence: Vv02s0033g01360.t01 (Vitis vinifera), 5'ss of exon 13
GGTCTGCTGTTGGGTTCAAACTAGACAGTCTCCTTAAATTATCTGATACTCGTGCTAGAAATAACAAAATGACTTTGATGCATTACTTATGCAAGgtatcaattttctaatcactatttcaagagcgcatctttgtgctagaagtgcatcatactgtttatgcagttagttgtctaaggtgctgtttgaagatgaacttaataccttatttcctttctactgtttag
|  ||||  | || |||||  | ||||| || ||||||||  ||||||||||||| ||||| |||||||||||||| ||||||||||| || ||||||    | ||  || |   | ||||| ||  ||  ||  |  |  |  ||||| ||  |       ||  |||||||| |        ||| |  ||| | | | |  | ||                   
GAGCTGCCATAGGATTCAAGTTGGACAGCCTTCTTAAATTGGCTGATACTCGTGCAAGAAACAACAAAATGACTTTAATGCATTACTTGTGTAAGgtag-gttgttgaaaccttcacttcaa-agtccaaattaat-ttttatttgcattatgat-------ca--tagttgtcaactcaaaaattttagcatgta-taattttccta-------------------

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|86044354|gb|DR340109.1|DR340109
EST:     ATACTCGTGCTAGAAATAACAAAATGACTTTGATGCATTACTTATGCAAG                         CTTGTTGGTGAAAAAATGCCAGAATTGCTGGATTTTGCTAATGACCTTGTT
genomic: ATACTCGTGCTAGAAATAACAAAATGACTTTGATGCATTACTTATGCAAGgtatcaattt ... tactgtttagCTTGTTGGTGAAAAAATGCCAGAATTGCTGGATTTTGCTAATGACCTTGTT
EST: gi|86044355|gb|DR340110.1|DR340110
EST:     ATACTCGTGCTAGAAATAACAAAATGACTTTGATGCATTACTTATGCAAG                         CTTGTTGGTGAAAAAATGCCAGAATTGCTGGATTTTGCTAATGACCTTGTT
genomic: ATACTCGTGCTAGAAATAACAAAATGACTTTGATGCATTACTTATGCAAGgtatcaattt ... tactgtttagCTTGTTGGTGAAAAAATGCCAGAATTGCTGGATTTTGCTAATGACCTTGTT