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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCAGCATCACTCTAAGCTTGTTTGCTATATAACTAAGGAGTTAATGGACACTGAGAACCCGCCGCAAGTCTTGCCCAATGGATATGTTTATAGCACTAAGgtccctgttattttagatattcttttagatgttccatgtataaagcatattttgtttattattttttgctcctttgcag

Basic information

species Glycine max
transcript GLYMA20G38660.1
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G38660.1 (Glycine max), 5'ss of exon 6
lower sequence: LOC_Os05g06760.1 (Oryza sativa), 5'ss of exon 6
GCAGCATCACTCTAAGCTTGTTTGCTATATAACTAAGGAGTTAATGGACACTGAGAACCCGCCGCAAGTCTTGCCCAATGGATATGTTTATAGCACTAAGgt---ccctgttattttagatat-tcttttagatgtt----ccatgtataaag-catattttgtttattattttttgctcctttgcag--------------------------------------
|||||| || || |||||||| ||||| ||||| |||||| | ||||||||||||||||| ||||  || || || ||||| |||||||||||||| |||||     ||   |  | |   |  || ||  | | ||    | || |   |   |||| ||       |  ||  |  | |    | |                                      
GCAGCACCATTCAAAGCTTGTCTGCTACATAACCAAGGAGCTCATGGACACTGAGAACCCACCGCTCGTTTTCCCGAATGGCTATGTTTATAGCACCAAGgtaaaaactacgagctgaaccaggtcattacggtattatgccgatctgcgagttcatacttgaaaccgtcgttcgtagtgccacactgataatccgttgctggctgttcattctatcctacctcag

upper sequence: GLYMA20G38660.1 (Glycine max), 5'ss of exon 6
lower sequence: LOC_Os05g06760.2 (Oryza sativa), 5'ss of exon 6
GCAGCATCACTCTAAGCTTGTTTGCTATATAACTAAGGAGTTAATGGACACTGAGAACCCGCCGCAAGTCTTGCCCAATGGATATGTTTATAGCACTAAGgtcc---ctgttattttagatat-tcttttagatgtt----ccatgtataaag-catattttgtttattattttttgctcctttgcag--------------------------------------
                       |||| ||||| |||||| | ||||||||||||||||| ||||  || || || ||||| |||||||||||||| |||||     ||   |  | |   |  || ||  | | ||    | || |   |   |||| ||       |  ||  |  | |    | |                                      
-----------------------GCTACATAACCAAGGAGCTCATGGACACTGAGAACCCACCGCTCGTTTTCCCGAATGGCTATGTTTATAGCACCAAGGTAAAAACTACGAGCTGAACCAGgtcattacggtattatgccgatctgcgagttcatacttgaaaccgtcgttcgtagtgccacactgataatccgttgctggctgttcattctatcctacctcag

upper sequence: GLYMA20G38660.1 (Glycine max), 5'ss of exon 6
lower sequence: GRMZM2G177026_T02 (Zea mays), 5'ss of exon 6
GCAGCATCACTCTAAGCTTGTTTGCTATATAACTAAGGAGTTAATGGACACTGAGAACCCGCCGCAAGTCTTGCCCAATGGATATGTTTATAGCACTAAGgtccctgtt---attttagatattcttttagatgttccat-------gtataaagcatattttgtttattattttttgctcctttgcag----
 ||||| ||||| ||||||||||| || || || |||||| | |||||||||||||||||||| || ||  |||| || || ||||| || ||    ||||| |    |   |  |  | | || || |   |    |||       ||  ||| |||  || | |||    ||  ||    |||||      
ACAGCACCACTCGAAGCTTGTTTGTTACATCACCAAGGAGCTCATGGACACTGAGAACCCGCCTCAGGTTCTGCCGAACGGCTATGTCTACAGTGAGAAGgtacacactcaaacctgtgctgttgttgtttgtaaagcatcagttcagttcaaaccat-cttggcttagcgcttgctgtatatttgcccccag

upper sequence: GLYMA20G38660.1 (Glycine max), 5'ss of exon 6
lower sequence: AT3G55070.1 (Arabidopsis thaliana), 5'ss of exon 6
GCAGCATCACTCTAAGCTTGTTTGCTATATAACTAAGGAGTTAATGGACACTGAGAACCCGCCGCAAGTCTTGCCCAATGGATATGTTTATAGCACTAAGgtccctgttattttagatattcttttagatgttccatgtataaagcatattttgtttattattttttgctcctttgcag------------------------------------------------------------------------------------
|||||| || || |||||||||||||||||  |||||||| |||||||||| |||||||| || || ||  |||||||||| || || || ||||| |||||     |   ||    ||    || || |  ||  |   |      | ||| |  | || || | |   | |   |||                                                                                    
GCAGCACCATTCAAAGCTTGTTTGCTATATTTCTAAGGAGCTAATGGACACAGAGAACCCACCACAGGTGCTGCCCAATGGCTACGTCTACAGCACCAAGgtttgattctgttcttgtacaacttcagcttctctgttctttttctctttttagaatctttttctattagcttgatcagttacatcagtctatcctatacagttcaaaaaatttaaagttgggttactttttttatttatttgatgggtaaatgaacttgcag

upper sequence: GLYMA20G38660.1 (Glycine max), 5'ss of exon 6
lower sequence: Vv13s0067g03560.t01 (Vitis vinifera), 5'ss of exon 6
GCAGCATCACTCTAAGCTTGTTTGCTATATAACTAAGGAGTTAATGGACACTGAGAACCCGCCGCAAGTCTTGCCCAATGGATATGTTTATAGCACTAAGgtccctgttatttta-----------gatattcttttagatgttccatgtataaagc-atattttgtttattatttt-----ttgctcctttgcag----
|||||||||||| |||||||||||||| |||||||| || || ||||| || |||||||| ||    || |||||||| || ||||| |||||||| ||||| | | | ||| ||           ||   | |||  |||      || | |  || | |   | ||  | ||  |     | |||  ||  ||     
GCAGCATCACTCGAAGCTTGTTTGCTACATAACTAAAGAATTGATGGATACGGAGAACCCACCTATGGTGTTGCCCAACGGTTATGTCTATAGCACCAAGgttcgtatcattctaatgtcaagtaagagcatatttgggattgattttgaaaagggctaaaagctcttcctaatgctgagaatcgctttttgacaaaaat

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|208072317|gb|GD869381.1|GD869381
EST:     CTGAGAACCCGCCGCAAGTCTTGCCCAATGGATATGTTTATAGCACTAAG                         GCTCTTGAAGAGATGGCGAAGAAGAATAATGGTAGAATCATCTGCCCAAGG
genomic: CTGAGAACCCGCCGCAAGTCTTGCCCAATGGATATGTTTATAGCACTAAGgtccctgtta ... tcctttgcagGCTCTTGAAGAGATGGCGAAGAAGAATAATGGTAGAATCATCTGCCCAAGG
EST: gi|5666950|gb|AI930986.1|AI930986
EST:     CTGAGAACCCACCGCAAGTCTTGCCCAATGGATATGTTTATAGCACTAAG                         GCTCTTGAAGAGATGGCGAAGAAGAATAATGGTACAATCATCTGCCCAAGG
genomic: CTGAGAACCCGCCGCAAGTCTTGCCCAATGGATATGTTTATAGCACTAAGgtccctgtta ... tcctttgcagGCTCTTGAAGAGATGGCGAAGAAGAATAATGGTAGAATCATCTGCCCAAGG
EST: gi|193436578|gb|FK402072.1|FK402072
EST:     CTGAGAACCCACCGCAAGTCTTGCCCAATGGATATGTTTATAGCACTAAG                         GCTCTTGAAGAGATGGCGAAGAAGAATAATGGTACAATCATCTGACCCAAG
genomic: CTGAGAACCCGCCGCAAGTCTTGCCCAATGGATATGTTTATAGCACTAAGgtccctgtta ... tcctttgcagGCTCTTGAAGAGATGGCGAAGAAGAATAATGGTAGAATCATCTG-CCCAAG
EST: gi|15662642|gb|BI700013.1|BI700013
EST:     CTGAGAACCCACCGCAAGTCTTGCCCAATGGATATGTTTATAGCACTAAG                         GCTCTTGAAGAGATGGCGAAGAAGAATAATGGTACAATCATCTGCCCCAGG
genomic: CTGAGAACCCGCCGCAAGTCTTGCCCAATGGATATGTTTATAGCACTAAGgtccctgtta ... tcctttgcagGCTCTTGAAGAGATGGCGAAGAAGAATAATGGTAGAATCATCTGCCCAAGG