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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TAATGCTCTTCATTCAGATAATGTAATGGCATATGACAATGCCGTTTCCGCTCTGGGAAAAATTTGCCAATTTCATCGTGACAGTATTGATTCTGCCCAGgtcagtacatattttccctgtttataacttgcttttgtggttttgattcttcattatgtttgtcattattatgatcaattctttgagtctgttttgttgtttttaggttgagatgatagttaatatttttgtaatgttctgttatgtttgcag

Basic information

species Glycine max
transcript GLYMA08G12120.1
intron # 17
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G12120.1 (Glycine max), 5'ss of exon 17
lower sequence: LOC_Os07g38760.1 (Oryza sativa), 5'ss of exon 17
TAATGCTCTTCATTCAGATAATGTAATGGCATATGACAATGCCGTTTCCGCTCTGGGAAAAATTTGCCAATTTCATCGTGACAGTATTGATTCTGCCCAGgtcagtacatattttccctgtttataacttgcttttgtggttttgattcttcattatgtttgtcattattatgatcaattctttgagtctgttttgttgtttttaggttgagatgatagttaatatttttgtaatgttctgttatgtttgcag
| | ||    ||| |||| ||| ||||||||||||||||||| ||||| || || || ||||| |||||||| ||||||||  |||| ||| | || ||||| ||  ||||| |  | |  | | |               ||   |   | |  |    ||||||| || || |  ||   ||  ||||  | | || | |  |        | | |                                   
TGAAGCAAAGCATGCAGACAATATAATGGCATATGACAATGCTGTTTCAGCGCTTGGTAAAATATGCCAATTCCATCGTGATGGTATCGATGCAGCTCAGgtaag--catatctcacatagtcaca---------------ttcagtcagttaaaacaactgtcattgttttgttatatatattctgtcttctgttttctatccaa-ccatattaaca-----------------------------------

upper sequence: GLYMA08G12120.1 (Glycine max), 5'ss of exon 17
lower sequence: LOC_Os03g49420.1 (Oryza sativa), 5'ss of exon 16
TAATGCTCTTCATTCAGATAATGTAATGGCATATGACAATGCCGTTTCCGCTCTGGGAAAAATTTGCCAATTTCATCGTGACAGTATTGATTCTGCCCAGgt-cagtacatattttccctgtttata-acttgcttttgtggttttgattcttcattatgtttgtcattattatgatcaattctttgagtctgttttgttgtttttaggttgagatgatagttaatatttttgtaatgttctgttatgtttgcag
 |||||  |  | |  |||||||  ||||||||||||||||| ||||| ||||| || ||||| || || |||||||||||  | |||||| |  | |||||    ||||     |     || ||| |||| || |   |  | |  ||  |||||     |     | ||   | |  | ||     |   ||    |                                                       
CAATGCGTTGGACTTGGATAATGCGATGGCATATGACAATGCTGTTTCTGCTCTTGGGAAAATATGTCAGTTTCATCGTGATGGCATTGATGCATCTCAGgtgtcttacaagccatatgaattaatatacttactctgaagtgtattcttactcatttgaaatcatggtgttgctacctgtcctgctgattaattaaact-------------------------------------------------------

upper sequence: GLYMA08G12120.1 (Glycine max), 5'ss of exon 17
lower sequence: GRMZM2G033619_T02 (Zea mays), 5'ss of exon 16
TAATGCTCTTCATTCAGATAATGTAATGGCATATGACAATGCCGTTTCCGCTCTGGGAAAAATTTGCCAATTTCATCGTGACAGTATTGATTCTGCCCAGgtcagtacatattttccctgtttataacttgcttttgtggttttgattcttcattatgtttgtcattattatgatcaattctttgagtctgttttgttgtttttaggttgagatgatagttaatatttttgtaatgttctgttatgtttgcag
|||||| ||  |||  ||||||| |||||| ||||||||||| ||||| ||||| |||||||| |||| |||||||||||| |  ||||||    | |||||    |   |   | | |    |||  | | | || | | ||  ||    |||    | |  | |  ||   ||  |  |||  ||| | |  | |  ||       |||                                          
TAATGCCCTGGATTTGGATAATGCAATGGCCTATGACAATGCTGTTTCTGCTCTTGGAAAAATATGCCGATTTCATCGTGATATCATTGATGTATCTCAGgtactca---accatacttaggcata--tggttcttctagcttatat----catggcatctagcctgcttc--attcagccttgtagtatataatataattccatttctga------------------------------------------

upper sequence: GLYMA08G12120.1 (Glycine max), 5'ss of exon 17
lower sequence: GRMZM5G887631_T01 (Zea mays), 5'ss of exon 16
TAATGCTCTTCATTCAGATAATGTAATGGCATATGACAATGCCGTTTCCGCTCTGGGAAAAATTTGCCAATTTCATCGTGACAGTATTGATTCTGCCCAGgtcagtacatattttccctgtttataacttgcttttgtggttttgattcttcattatgtttgtcattattatgatcaattctttgagtctgttttgttgtttttaggttgagatgatagttaatatttttgtaatgttctgttatgtttgcag
| |||| |  | | | |||||| | ||||||||||||||||| ||||| || || |||||||| |||||||||||||| ||  |||||||| | || |||||     ||| ||||||    |||| |        ||| |     ||| |  | ||  | || | ||     ||  | ||  |||||    || ||||||| | |  |    |  | |                                   
TGATGCACGACTTCCTGATAATATCATGGCATATGACAATGCTGTTTCGGCGCTTGGAAAAATATGCCAATTTCATCGGGATGGTATTGATGCAGCTCAGgtatcagcatcttttcc----ttatga--------tgtcgccaatattttctagta-atgtgccttt-----gacaacttgcttgagatgattgtgttgttgtgatatgataaaaaaa-----------------------------------

upper sequence: GLYMA08G12120.1 (Glycine max), 5'ss of exon 17
lower sequence: AT5G19820.1 (Arabidopsis thaliana), 5'ss of exon 16
TAATGCTCTTCATTCAGATAATGTAATGGCATATGACAATGCCGTTTCCGCTCTGGGAAAAATTTGCCAATTTCATCGTGACAGTATTGATTCTGCCCAGgtcagtacatattttccctgtttataacttgcttttgtggttttgattcttcattatgtttgtcattattatgatcaattctttgagtctgttttgttgtttttaggttgagatgatagttaatatttttgtaatgttctgttatgtttgcag
 |||||||  || || || ||||  ||||||||||| ||||| || || ||  ||||||| || ||||||||||| ||||| |||||||||||| | |||||      | ||| |    |||   |  ||| ||| |   |  |     | |||   ||| ||  | || ||   ||| |     |   ||||||| | || ||||                                               
AAATGCTCGGCAATCTGAAAATGCCATGGCATATGATAATGCTGTATCAGCCGTGGGAAAGATCTGCCAATTTCACCGTGATAGTATTGATTCTTCTCAGgt------agattataatagtt---attttggtttcgccatcgtacccatacatgtggttggttttgatgattcacaagtt----accttgttttggttttattag-----------------------------------------------

upper sequence: GLYMA08G12120.1 (Glycine max), 5'ss of exon 17
lower sequence: Vv06s0004g00500.t01 (Vitis vinifera), 5'ss of exon 17
TAATGCTCTTCATTCAGATAATGTAATGGCATATGACAATGCCGTTTCCGCTCTGGGAAAAATTTGCCAATTTCATCGTGACAGTATTGATTCTGCCCAGgtcagtacatattttccctgtttataacttgcttttgtggttttgattcttcattatgtttgtcattattatgatcaattctttgagtctgttttgttgtttttaggttgagatgatagttaatatttttgtaatgttctgttatgtttgcag
|||||| || ||  |||||||||||||||||||||| ||||| ||||| ||||| |||||||||||||| ||||||||||||||||||||||| || |||||   | ||   ||| |      ||| | |   |     |    | ||  | || || |||||||| ||  |  |||  | ||  |          |||  |  |   |  |                                         
TAATGCACTGCAACCAGATAATGTAATGGCATATGATAATGCTGTTTCTGCTCTAGGAAAAATTTGCCAGTTTCATCGTGACAGTATTGATTCAGCTCAGgtagtttcac--ttttctcaaccatatcatatct---aagcacaggttgattat-at-tttgtcatcatc-tactcatgtattccaacaaa----attgcctaaaaaattgg-----------------------------------------

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|193526131|gb|FK480656.1|FK480656
EST:     CTCTGGGAAAAATTTGCCAATTTCATCGTGACAGTATTGATTCTGCCCAG                         GTAGTTCCTGCATGGCTAAACTGTTTGCCAATCAAAGGTGATTTGATTGAG
genomic: CTCTGGGAAAAATTTGCCAATTTCATCGTGACAGTATTGATTCTGCCCAGgtcagtacat ... atgtttgcagGTAGTTCCTGCATGGCTAAACTGTTTGCCAATCAAAGGTGATTTGATTGAG