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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TAAAAACAAATGACATGATGCTCGTAATCTACCTTTCTTCGCTTATCCGAAGTGTAATCGCCCTCCACAGTTTGATCAACAACAAGgtaagatagaccatcatctctctatttctctctagtaggtgattgatttgaatttgctctatgcaaaatttgttttgttaatctgtggatgctatgtttcag

Basic information

species Arabidopsis thaliana
transcript AT3G11270.2
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G11270.2 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GRMZM2G368908_T02 (Zea mays), 5'ss of exon 8
--------------TAAAAACAAATGACATGATGCTCGTAATCTACCTTTCTTCGCTTATCCGAAGTGTAATCGCCCTCCACAGTTTGATCAACAACAAGgtaagatagacc-atcatctctctatttctctctagtaggtgattgatttgaatttgctctatgcaaaatttgttttgttaatctgtgg--atgctatgtttcag-----------------------------------------------
              | |||||||| ||||||||| | ||||| || || ||||| || ||||| ||||| || || || |||| |||||||||||| |||||  | |      |||  ||     |     |  |||   |   ||  |    | |    | ||     |||||    || | |  | |  |||  ||   |||                                                
TTTCTTTTGTACAGTGAAAACAAACGACATGATGTTGGTAATATATCTGTCTTCTCTGATCCGGAGTGTCATTGCGCTTCACAATTTGATCAACAATAAGgttggttgtttttatctgcttctggtgctgtttcagtcccttggtgcatcccttgtagattttgatgtctttgtgacattgaccactagtaatgaaatcactcaattttgctgtgagcatgaaatctggtctgttaattgctgtgattccag

upper sequence: AT3G11270.2 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GRMZM2G368908_T03 (Zea mays), 5'ss of exon 6
TAAAAACAAATGACATGATGCTCGTAATCTACCTTTCTTCGCTTATCCGAAGTGTAATCGCCCTCCACAGTTTGATCAACAACAAGgtaagatagaccatcatctctctatttctctct-agtaggtgattgatttgaatttgctctatgcaaaatttgttttgttaatctgtgg--atgctatgtttcag-----------------------------------------------
| |||||||| ||||||||| | ||||| || || ||||| || ||||| ||||| || || || |||| |||||||||||| |||||  | |         |   |||  | || | | |||   |   ||  |    | |    | ||     |||||    || | |  | |  |||  ||   |||                                                
TGAAAACAAACGACATGATGTTGGTAATATATCTGTCTTCTCTGATCCGGAGTGTCATTGCGCTTCACAATTTGATCAACAATAAGgttggttgtttttatctgcttctggtgctgtttcagtcccttggtgcatcccttgtagattttgatgtctttgtgacattgaccactagtaatgaaatcactcaattttgctgtgagcatgaaatctggtctgttaattgctgtgattccag

upper sequence: AT3G11270.2 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GLYMA18G03360.1 (Glycine max), 5'ss of exon 9
-TAAAAACAAATGACATGATGCTCGTAATCTACCTTTCTTCGCTTATCCGAAGTGTAATCGCCCTCCACAGTTTGATCAACAACAAGgtaagatagaccatcatctctctatttctctctagtaggtgattgatttgaatttgctctatgcaaaatttgttttgttaatctgtggatgctatgtttcag
 | ||||||||||| |||||||| ||||| ||||| || || || ||  |||||||||| || |||||||  ||||| ||||||||||| ||||| ||  ||  ||   | ||  |   |  | | |||||  |||| ||||    | ||  |    | || ||  |||    |  |  || | ||   
GTGAAAACAAATGATATGATGCTGGTAATATACCTCTCATCTCTCATTAGAAGTGTAATTGCACTCCACAACTTGATTAACAACAAggtgagatacac--tcccctaaattttgatgcatgtttgctgatttctttgtattttggatttgttat-catattatgaaaataacagttttgtaaggttgga

upper sequence: AT3G11270.2 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GLYMA11G34980.1 (Glycine max), 5'ss of exon 9
TAAAAACAAATGACATGATGCTCGTAATCTACCTTTCTTCGCTTATCCGAAGTGTAATCGCCCTCCACAGTTTGATCAACAACAAGgtaagatagaccatcatc--tctctatttctctctagtaggtgattgatttgaatttgctctatgcaaaatttgttttgttaatctgtggatgctatgtttcag
| ||||| ||||| |||||||| ||||| ||||| || || || ||  |||||||||| || |||||||  ||||| ||||||||||| ||||| ||   | |   | |   |   | | |  | | || |||   ||| |    | |||     ||||||| |  || | ||   ||   | ||||   
TGAAAACCAATGATATGATGCTGGTAATATACCTCTCGTCTCTCATTAGAAGTGTAATAGCACTCCACAACTTGATTAACAACAAGgtgagatacactcccctaaattttgctgcatgtatcattgatgtttg--ctgattactttatattttggatttgttatcatattatgaaaataaca-gttttg-

upper sequence: AT3G11270.2 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: Vv08s0007g01980.t01 (Vitis vinifera), 5'ss of exon 9
TAAAAACAAATGACATGATGCTCGTAATCTACCTTTCTTCGCTTATCCGAAGTGTAATCGCCCTCCACAGTTTGATCAACAACAAGgtaagatagaccatcatctctctatttctctctagtaggtgattgatttgaatttgctctatgcaaaatttgtttt--gttaatctgtggatgctatgtttcag
| ||||||||||| |||||| | || || || ||||| || || ||||||||||| || || |||||||  |||||||| |||||||||| ||   |  |  ||     | |    | |   | |    | | | ||  |||  || ||   |  |  ||||  | |      ||  |   ||||| |  
TGAAAACAAATGATATGATGTTGGTTATTTATCTTTCATCTCTCATCCGAAGTGTTATAGCTCTCCACAACTTGATCAATAACAAGgtaatatgccctcttctcatatgaatgagttttttcatgc---taactagacattggcct-tggttacctgattttaagctggatattgagttgaatgttacga

upper sequence: AT3G11270.2 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: EFJ21414 (Selaginella moellendorffii), 5'ss of exon 8
TAAAAACAAATGACATGATGCTCGTAATCTACCTTTCTTCGCTTATCCGAAGTGTAATCGCCCTCCACAGTTTGATCAACAACAAGgtaagatagaccatcatctctctatttctctctagtaggtgattgatttgaatttgctctatgcaaaatttgttttgttaatctgtggatgctatgtttcag
| || || || |||||||||||||| ||||| || ||||| ||||||||||| || ||||| || |||| | | |||||||||||||||   |     |            ||  |  ||        ||| | || |                                                  
TCAAGACGAACGACATGATGCTCGTCATCTATCTCTCTTCTCTTATCCGAAGCGTCATCGCTCTACACAATCTCATCAACAACAAGgtatcgttattgaaaggagaaaagctttacaatatatttctcttgctgtgcag-------------------------------------------------

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|86084913|gb|DR380672.1|DR380672
EST:     CTTCGCTTATCCGAAGTGTAATCGCCCTCCACAGTTTGATCAACAACAAG                         TTGTTGAATAAGGAACATGAAAAAGCAGAGGACTCCAAGCCTGTTGACATA
genomic: CTTCGCTTATCCGAAGTGTAATCGCCCTCCACAGTTTGATCAACAACAAGgtaagataga ... tatgtttcagTTGTTGAATAAGGAACATGAAAAAGCAGAGGACTCAAAGCCTGTTGACATA