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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCTGTGATGCTGATATACACGTCATTGTAAAAATTGAAAGTGCAGACTCTATACCAAACTTGCATTCAATTATTACAGCGTCTGATGGGgtgctaatctaatcctcacgttatttactttatagttactgcctgattctggaaaatagggatgatttagcccatattataaaaacagaagcctttggtactgagtgtgttttgtttagagatcgtggattaagtttttggggcacttgtttgctgattgttgatgttgaactgtctactttttccatcctgtttag

Basic information

species Glycine max
transcript GLYMA20G30430.1
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G30430.1 (Glycine max), 5'ss of exon 6
lower sequence: LOC_Os01g47080.1 (Oryza sativa), 5'ss of exon 6
GCTGTGATGCTGATATACACGTCATTGTAAAAATTGAAAGTGCAGACTCTATACCAAACTTGCATTCAATTATTACAGCGTCTGATGGGgtgctaatcta--atcctcacgttatttactttatagttactgcctgattctggaaaatagggatgatttagcccatatt-ataaaaacagaagcctttggtactgagtgtgttttgtttagagatcgtggattaagtttttggggcacttgtttgctgat-tgttgatgttgaactgtctactttttccatcctgtttag
|||   |||| |||||||| || |||||||| |||||||||||||| || || |||||| | || ||||| || ||||| || ||||||||    |   |  ||  ||   |  || | ||||     ||    | |  |    |  |  |     |||||    | || |     |   ||    |||  | | ||  |   || ||||    |  || |||  || |         || | |    || |||  |   |||  | | || | ||   ||  |||    
GCTCCAATGCCGATATACATGTAATTGTAAAGATTGAAAGTGCAGATTCCATTCCAAACCTACACTCAATCATCACAGCATCGGATGGGgtaaagagacagaattttcttatacttcagtttagcaggacgcgttaaacccatcatcttagc----tttagattgtgttgagctgtatgtaaaatcttg--aataaggcttccttttttacttgttctg-attttgtatacaaactttttttatttcaatatgtgaactctgacatatgtaatgttga-atgatgtag--

upper sequence: GLYMA20G30430.1 (Glycine max), 5'ss of exon 6
lower sequence: GRMZM2G152686_T01 (Zea mays), 5'ss of exon 6
GCTGTGATGCTGATATACACGTCATTGTAAAAATTGAAAGTGCAGACTCTATACCAAACTTGCATTCAATTATTACAGCGTCTGATGGGgtgctaa-tctaatcctcacgttatttactttatagttactgcctgattctggaaaatagggatgatttagcccatattataaaaacagaagcctttggtactgagtgtgttttgtttagagatcgtggattaagtttttggggcacttgtttgctgattgttgatgttgaactgtctactttttccatcctgtttag
| ||  ||||||| ||||| || || |||||||| |||||||||||||| || || ||||| |||||||| || ||||| |||||||||||   || | || |       |||| | ||||   | |   |    || |    |||   || | || ||     | ||  |  ||   |      | |||  |                                                                                              
GTTGCAATGCTGACATACATGTTATCGTAAAAATAGAAAGTGCAGACTCCATCCCCAACTTACATTCAATCATCACAGCATCTGATGGGgtaaaaaatatattatcttaattatatgcttt---ggtctagtgaaatgccatcaaa--aggtttatctattatct-ttgcatgaatgaacttgagttgtatggga--------------------------------------------------------------------------------------------

upper sequence: GLYMA20G30430.1 (Glycine max), 5'ss of exon 6
lower sequence: AT5G52920.1 (Arabidopsis thaliana), 5'ss of exon 6
GCTGTGATGCTGATATACACGTCATTGTAAAAATTGAAAGTGCAGACTCTATACCAAACTTGCATTCAATTATTACAGCGTCTGATGGGgtgctaatctaatcctcacgttatttactttatagttactgcctgattctggaaaatagggatgatttagcccatattataaaaacagaagcctttggtactgagtgtgttttgtttagagatcg-tggattaagtttttgg---ggcacttgtttgc-tgattgttgatgttgaactgtctactttttccatcctgtttag
   ||| ||||||||||||||| || || |||||||| ||||||||||| ||||| |||||||| || ||||| ||||| || ||||||||| |  | |  |    || || | || ||| |  ||    | |   | ||    | ||     | |   |  || | | |  ||| ||    || | |        ||||||||  |   ||   |  || |  |  ||||   ||| |||||     |||||||  |  | ||  ||| ||  | || ||          
ATAGTGGTGCTGATATACACGTGATAGTGAAAATTGAGAGTGCAGACTCCATACCTAACTTGCACTCCATTATCACAGCATCAGATGGGgtgatt-ttttctgtcaaccttgtctattttgttcttctgacttttatatgtcttacagtatgtaatctccttatgtgagagcaactga----ttggatgt------tgttttgtgaaacaataaatatatcatatggttggaatggctcttgtgcatgtgattgtctaattagatttgtgtatgtcttacag---------

upper sequence: GLYMA20G30430.1 (Glycine max), 5'ss of exon 6
lower sequence: Vv16s0050g02180.t01 (Vitis vinifera), 5'ss of exon 6
GCTGTGATGCTGATATACACGTCATTGTAAAAATTGAAAGTGCAGACTCTATACCAAACTTGCATTCAATTATTACAGCGTCTGATGGGgtgctaatctaatcctcacgttatttactttatagttactgcctgattctggaaaatagggatgatttagcccatattataaaaacagaagcctttggtactgagtgtgttttgtttagagatcgtggattaagtttttggggcacttgtttgctgattgttgatgttgaactgtctactttttccatcctgtttag
||||| |||| ||||| || |||||||| |||||||||||||| ||||| || || ||  | |||||||||||||| || |||||||||||  |  ||| |  ||   ||  |     || |||| ||||| |  || |      || |||| | |||      ||| |  | | |||    |  |||  | ||| ||| | ||||                                                                                
GCTGTAATGCAGATATCCATGTCATTGTTAAAATTGAAAGTGCCGACTCCATTCCCAATCTACATTCAATTATTACCGCATCTGATGGGgtaatcgtctgaatctt-tgtattgcgtcttctagt-actgc-tattttt------tatggattaatta-----cattttcgatagaga----tccggt--taagtttgtctagtttcat-----------------------------------------------------------------------------

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|17022372|gb|BM093406.1|BM093406
EST:     GTGCAGACTCTATACCAAACTTGCATTCAATTATTACAGCGTCTGATGGG                         GCCATGGTTGCAAGAGGAGATCTTGGTGCAGAACTCCCTATTGAAGAGGTT
genomic: GTGCAGACTCTATACCAAACTTGCATTCAATTATTACAGCGTCTGATGGGgtgctaatct ... tcctgtttagGCCATGGTTGCAAGAGGAGATCTTGGTGCAGAACTCCCTATTGAAGAGGTT
EST: gi|26048943|gb|CA785396.1|CA785396
EST:     GTGCAGACTCTATACCAAACTTGCATTCAATTATTACAGCGTCTGATGGG                         GCCATGGTTGCAAGAGGAGATCTTGGTGCAGAACTCCCTATTGAAGAGGTT
genomic: GTGCAGACTCTATACCAAACTTGCATTCAATTATTACAGCGTCTGATGGGgtgctaatct ... tcctgtttagGCCATGGTTGCAAGAGGAGATCTTGGTGCAGAACTCCCTATTGAAGAGGTT
EST: gi|26048715|gb|CA785168.1|CA785168
EST:     GTGCAGACTCTATACCAAACTTGCATTCAATTATTACAGCGTCTGATGGG                         GCCATGGTTGCAAGAGGAGATCTTGGTGCAGAACTCCCTATTGAAGAGGTT
genomic: GTGCAGACTCTATACCAAACTTGCATTCAATTATTACAGCGTCTGATGGGgtgctaatct ... tcctgtttagGCCATGGTTGCAAGAGGAGATCTTGGTGCAGAACTCCCTATTGAAGAGGTT
EST: gi|192328427|gb|FK020715.1|FK020715
EST:     CTCTATACCAAACTTGCATTCAATTATTACAGCGTCTGATGGG                         GCCATGGTTGCAAGAGGAGATCTTGGTGCAGAACTCCCTATTGAAGAGGTT
genomic: CTCTATACCAAACTTGCATTCAATTATTACAGCGTCTGATGGGgtgctaatct ... tcctgtttagGCCATGGTTGCAAGAGGAGATCTTGGTGCAGAACTCCCTATTGAAGAGGTT