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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCTGCGGTGCTGATATACATGTCATCGTAAAAATTGAAAGTGCAGACTCTATACCAAATTTGCATTCAATTATCACTGCATCTGATGGGgtgctaatctaatccttgcattatttctttatgctttagtgttgcatgtatattgcttgtggttatgaatgatagagattgtggactatttctgtactgattgctgatactgacctgtctatttttaccttttttgtttag

Basic information

species Glycine max
transcript GLYMA16G28980.2
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA16G28980.1 (Glycine max), 5'ss of exon 6
lower sequence: LOC_Os01g47080.1 (Oryza sativa), 5'ss of exon 6
GCTGCGGTGCTGATATACATGTCATCGTAAAAATTGAAAGTGCAGACTCTATACCAAATTTGCATTCAATTATCACTGCATCTGATGGGgtgctaatcta--atccttgcattatttctttatgcttta-gtgttgcatgtata----ttgcttgtggttatg----aatg-atagagattgtggactatttctgtactgattgctgatactgacctgtctatttttaccttttttgtttag---------------------------------------
||| |  ||| ||||||||||| || ||||| |||||||||||||| || || |||||  | || ||||| ||||| ||||| ||||||||    |   |  ||  |   ||  ||   ||  ||   | | |||  |   ||     | ||||  | || ||      || ||  | | | | || ||   ||    |  || ||  | ||||  | | |||    || |||||| |||                                         
GCTCCAATGCCGATATACATGTAATTGTAAAGATTGAAAGTGCAGATTCCATTCCAAACCTACACTCAATCATCACAGCATCGGATGGGgtaaagagacagaattttcttatacttcagtttagcaggacgcgttaaacccatcatcttagctttagattgtgttgagctgtatgtaaaatcttgaataaggcttccttttttacttgttctgattt-tgtatacaaactttttttatttcaatatgtgaactctgacatatgtaatgttgaatgatgtag

upper sequence: GLYMA16G28980.1 (Glycine max), 5'ss of exon 6
lower sequence: GRMZM2G152686_T01 (Zea mays), 5'ss of exon 6
GCTGCGGTGCTGATATACATGTCATCGTAAAAATTGAAAGTGCAGACTCTATACCAAATTTGCATTCAATTATCACTGCATCTGATGGGgtgctaatctaatccttgcattatttctttatgctttagtgttgcatgtatattgcttgtggttatgaatgatagagattgtggactatttctgtactgattgctgatactgacctgtctatttttaccttttttgtttag
| |||  |||||| |||||||| ||||||||||| |||||||||||||| || || || || |||||||| ||||| ||||||||||||||   ||    ||  |   | |     | |||||||| || | |    |  | |||            || | |  | || |  | ||| | || |   ||    ||   |||  ||| |                     
GTTGCAATGCTGACATACATGTTATCGTAAAAATAGAAAGTGCAGACTCCATCCCCAACTTACATTCAATCATCACAGCATCTGATGGGgtaaaaaatatattatcttaat-----tatatgctttggtctag----tgaaatgcc-----------atcaaaaggtttatctattatctttgcatgaat----gaacttgagttgtatggga-----------------

upper sequence: GLYMA16G28980.1 (Glycine max), 5'ss of exon 6
lower sequence: AT5G52920.1 (Arabidopsis thaliana), 5'ss of exon 6
GCTGCGGTGCTGATATACATGTCATCGTAAAAATTGAAAGTGCAGACTCTATACCAAATTTGCATTCAATTATCACTGCATCTGATGGGgtgctaatct-----aatcct---tgcattatttctttatgcttta-gtgttgcat-gtatattgcttgtggttatgaatgatagagattgtggactatttc-tgtactgattgctg----atac---tgacctgtctatttttaccttttttgtttag-----------------------
   | |||||||||||||| || || || |||||||| ||||||||||| ||||| || ||||| || |||||||| ||||| ||||||||| |  | |     || | |   |   || ||  | |    ||||  |||   |  |||| |    |     | |||  |  |  |||||     | |||  || |   ||   |     |||    ||   || || || |     |  |||| ||                        
ATAGTGGTGCTGATATACACGTGATAGTGAAAATTGAGAGTGCAGACTCCATACCTAACTTGCACTCCATTATCACAGCATCAGATGGGgtgattttttctgtcaaccttgtctattttgttcttctgacttttatatgtcttacagtatgtaatctccttatgtgagagcaactgattggatgttgttttgtgaaacaataaatatatcatatggttggaatggctcttgtgcatgtgattgtctaattagatttgtgtatgtcttacag

upper sequence: GLYMA16G28980.1 (Glycine max), 5'ss of exon 6
lower sequence: Vv16s0050g02180.t01 (Vitis vinifera), 5'ss of exon 6
GCTGCGGTGCTGATATACATGTCATCGTAAAAATTGAAAGTGCAGACTCTATACCAAATTTGCATTCAATTATCACTGCATCTGATGGGgtgctaatct-aatccttgcattatttctttatgctttagtgttgcatgtatattgcttgtggttatgaatgatagagattgtggactatttctgtactgattgctgatactgacctgtctatttttaccttttttgtttag
||||   ||| ||||| |||||||| || |||||||||||||| ||||| || || ||| | ||||||||||| || ||||||||||||||  |  ||| |||| ||| |||   ||||   |   |  | ||   | |  |||  ||    ||  ||    |||||||    |  ||  | |||   | ||  |                                    
GCTGTAATGCAGATATCCATGTCATTGTTAAAATTGAAAGTGCCGACTCCATTCCCAATCTACATTCAATTATTACCGCATCTGATGGGgtaatcgtctgaatctttgtattgcgtcttctagtactgctattttttatggattaattacattttcga----tagagatcc--ggttaagtttgtctagtttcat------------------------------------

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|23734545|gb|BU765511.1|BU765511
EST:     GTGCAGACTCTATACCAAATTTGCATTCAATTATCACTGCATCTGATGGG                         GCAATGGTTGCCAGAGGAGATCTTGGCGCTGAGCTCCCTATTGAAGAGGTT
genomic: GTGCAGACTCTATACCAAATTTGCATTCAATTATCACTGCATCTGATGGGgtgctaatct ... ttttgtttagGCAATGGTTGCCAGAGGAGATCTTGGCGCTGAGCTCCCTATTGAAGAGGTT