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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACTGAACCGTATGTTCATCATCAATGCTGGTTCTGGATTTAGGCTCTTGTGGAACACCATTAAGTCATTCCTAGATCCCAAGACCACCTCAAAAATCCATgtaaacatttttagtctgctgatcaatttgaaccaatgttgattttcatttaagcagggacactgaacatgttaatgatttattgaccag

Basic information

species Glycine max
transcript GLYMA06G01270.1
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA06G01270.1 (Glycine max), 5'ss of exon 6
lower sequence: LOC_Os02g04030.3 (Oryza sativa), 5'ss of exon 4
ACTGAACCGTATGTTCATCATCAATGCTGGTTCTGGATTTAGGCTCTTGTGGAACACCATTAAGTCATTCCTAGATCCCAAGACCACCTCAAAAATCCATgtaaac------atttttagtctgctga---tcaat-ttgaaccaat--------gttgattttcatttaagcagg--gacactgaacatgt--taatgatt-tattgaccag---------------
 |||  ||| |||||||||||||| || |||   ||||| |||||  | ||||||||| | ||||| ||||| ||||||||||||||  | || |||||||||| |      ||    | |||  |     ||||| |   | | ||         || |  | ||||| | ||    |  ||| |||||    ||||| ||  ||| |   |               
TCTGTGCCGGATGTTCATCATCAACGCCGGTCAAGGATTCAGGCTTCTCTGGAACACCGTCAAGTCCTTCCTCGATCCCAAGACCACAGCCAAGATCCATgtaatccaatccatccacaatcttttcgatgtcaatgtcacatcgatcattcgtaattaagctacatttgatcaatttgcaactaaacattacataatgtttgcatttatgtgccctgttttaaccag

upper sequence: GLYMA06G01270.1 (Glycine max), 5'ss of exon 6
lower sequence: AT2G18180.1 (Arabidopsis thaliana), 5'ss of exon 6
ACTGAACCGTATGTTCATCATCAATGCTGGTTCTGGATTTAGGCTCTTGTGGAACACCATTAAGTCATTCCTAGATCCCAAGACCACCTCAAAAATCCATgtaaacatttttagtctgctgatcaatttgaaccaatgttgattttcatttaagcagggacactgaacatgttaatgatttattgaccag
  ||||| | ||||| |||||||||||||| || ||||| ||| | |||||||||||  ||||||| ||||| || || ||||| ||  |||| ||||||| ||  ||    |  ||  | |||| | |  ||  || |  ||            ||  |  || |  |  |   | ||||  |   |||
CTTGAACAGGATGTTTATCATCAATGCTGGCTCAGGATTCAGGATGTTGTGGAACACGGTTAAGTCTTTCCTTGACCCAAAGACTACAGCAAAGATCCATgcaagtatacaaaccctttttatcactcttgactgatataaat---------gagagatattcttactacttagctaatttgatattcag

upper sequence: GLYMA06G01270.1 (Glycine max), 5'ss of exon 6
lower sequence: AT4G36490.1 (Arabidopsis thaliana), 5'ss of exon 5
ACTGAACCGTATGTTCATCATCAATGCTGGTTCTGGATTTAGGCTCTTGTGGAACACCATTAAGTCATTCCTAGATCCCAAGACCACCTCAAAAATCCATgtaaacatttttagtctgctgatcaatttgaaccaatgttgattttcatttaagcagggacactgaacatgttaatgatttattg----accag
  ||||| | ||||| |||||||||||||| || ||||| ||  | |||||||||||  ||||||| ||||| || || ||||| ||  |||||||||||| ||  |||   |  ||  |   | |||  | |   |  ||| |   | ||| |     ||| |  |  |  | ||  ||| ||     |||||
CTTGAACAGGATGTTTATCATCAATGCTGGCTCAGGATTCAGAATGTTGTGGAACACGGTTAAGTCCTTCCTTGACCCGAAGACTACAGCAAAAATCCATgcaagtattcaaaacctttta--ctattgaatcttcttctgaatgataatta-gttttcacaatttaagtaattatactttgtttgaataccag

upper sequence: GLYMA06G01270.1 (Glycine max), 5'ss of exon 6
lower sequence: Vv03s0038g04480.t01 (Vitis vinifera), 5'ss of exon 6
ACTGAACCGTATGTTCATCATCAATGCTGGTTCTGGATTTAGGCTCTTGTGGAACACCATTAAGTCATTCCTAGATCCCAAGACCACCTCAAAAATCCATgtaaacatttttagtctgctgatcaatttgaaccaatgttgattttcatttaagcagggacactgaacatgttaatgattt-attg-accag
|||   ||||||||||||||| ||||||||||||||||| ||||| || ||||| ||  | || || ||||| || ||||||||||| ||||| || ||||| | |||||   |||| ||| | |  || ||| | |  |  |||| ||  ||  |    |||| |||    ||| | ||| |||| |||||
ACTTTGCCGTATGTTCATCATTAATGCTGGTTCTGGATTCAGGCTGTTATGGAATACTGTCAAATCTTTCCTTGACCCCAAGACCACTTCAAAGATTCATgtgaccattt---gtcttctgtttaccttaaactattacttgttttgatcaaacaaaatccacttaaccatctaacggttttattgtaccag

upper sequence: GLYMA06G01270.1 (Glycine max), 5'ss of exon 6
lower sequence: EFJ28804 (Selaginella moellendorffii), 5'ss of exon 5
ACTGAACCGTATGTTCATCATCAATGCTGGTTCTGGATTTAGGCTCTTGTGGAACACCATTAAGTCATTCCTAGATCCCAAGACCACCTCAAAAATCCATgtaaacatttttagtctgctgatcaatttgaaccaatgttgattttcatttaagcagggacactgaacatgttaatgatttattgaccag
| || | |||||||| || || ||||||||| ||||||||| |||  |||||||||||||   |  |||  ||||||| || ||  |  | |||||   ||||| ||   | | |   |    || ||| |    ||   |  | |  || |                                      
ATTGCATCGTATGTTTATTATAAATGCTGGTCCTGGATTTAAGCTTGTGTGGAACACCATACGGGGATTTTTAGATCCGAAAACAGCTACCAAAATATCTgtaagcaggctgaatggacactgcagtttcacttcatcaaggctctttttcag-------------------------------------

upper sequence: GLYMA06G01270.1 (Glycine max), 5'ss of exon 6
lower sequence: EFJ17479 (Selaginella moellendorffii), 5'ss of exon 5
ACTGAACCGTATGTTCATCATCAATGCTGGTTCTGGATTTAGGCTCTTGTGGAACACCATTAAGTCATTCCTAGATCCCAAGACCACCTCAAAAATCCATgtaaacatttttagtctgctgatcaatttgaaccaatgttgattttcatttaagcagggacactgaacatgttaatgatttattgaccag
| || | |||||||| || || ||||||||| ||||||||| |||  |||||||||||||   |  |||  ||||||| || ||  |  | |||||   ||||| ||   | | |   |    || ||| |    ||   |  | |  || |                                      
ATTGCATCGTATGTTTATTATAAATGCTGGTCCTGGATTTAAGCTTGTGTGGAACACCATACGGGGATTTTTAGATCCGAAAACAGCTACCAAAATATCTgtaagcaggctgaatggacactgcagtttcacttcatcagggctctttttcag-------------------------------------

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|41145355|gb|CK605566.1|CK605566
EST:     GGAGCACCATTAAGTCATTCCTAGATCCCAAGACCACCTCAAAAATCCAT                         GTCCTAGGTAACAAATACCAGAGCAAGTTGCTTGAAATCATTGATGCCAG
genomic: GGAACACCATTAAGTCATTCCTAGATCCCAAGACCACCTCAAAAATCCATgtaaacattt ... tattgaccagGTCCTAGGTAACAAATACCAGAGCAAGTTGCTTGAAATCATTGATGCCAG
EST: gi|41145747|gb|CK605958.1|CK605958
EST:     GGAACACCATTAAGTCATTCCTAGATCCCAAGACCACCTCAAAAATCCAT                         GTCCTAGGTAACAAATACCAGAGCAAGTTGCTTGAAATCATTGATGCCAG
genomic: GGAACACCATTAAGTCATTCCTAGATCCCAAGACCACCTCAAAAATCCATgtaaacattt ... tattgaccagGTCCTAGGTAACAAATACCAGAGCAAGTTGCTTGAAATCATTGATGCCAG