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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGATGCCACCGGTGCACAGGTTGTGGCTCACGAGCTTGCTCACAGTTGGACTGGGAATTTGATCACTAACAAGACCAATGAACATTTCTGGTTGAATGAGgtaatattctcctactagtgcgttttgatttgatggcgatcatgagattgttgttcttgattttggttttag

Basic information

species Glycine max
transcript GLYMA20G38780.1
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G38780.1 (Glycine max), 5'ss of exon 1
lower sequence: LOC_Os03g60460.1 (Oryza sativa), 5'ss of exon 1
GGATGCCACCGGTGCACAGGTTGTGGCTCACGAGCTTGCTCACAGTTGGACTGGGAATTTGATCACTAACAAGACCAATGAACATTTCTGGTTGAATGAGgtaat-------attctcc-----tactagtg--cgttttgatttgatggcgatca-tgagattgttgttcttgattttggttttag-------------
||| ||  | || || || || ||||| || ||||| || ||||| |||||||| ||  ||||||||||||||||||||||| |||||||| | |||||||| |        |  ||||     | |||||   ||| | ||| || |       | | ||||  |||||   |    ||   || |             
GGACGCTGCTGGGGCGCAAGTGGTGGCGCATGAGCTCGCGCACAGCTGGACTGGCAACCTGATCACTAACAAGACCAATGAAGATTTCTGGCTAAATGAGgtgaagtgatgaaccctccatttgttctagttgtcgtctagatgtgcttttaggtacttagatgattgttaaagccggtgaaatttgaaattgtgtctat

upper sequence: GLYMA20G38780.1 (Glycine max), 5'ss of exon 1
lower sequence: GRMZM2G155580_T03 (Zea mays), 5'ss of exon 1
GGATGCCACCGGTGCACAGGTTGTGGCTCACGAGCTTGCTCACAGTTGGACTGGGAATTTGATCACTAACAAGACCAATGAACATTTCTGGTTGAATGAGgt-aatattctcctactagtgcgttttgatttgatggcgatcatgagattgttgttcttgattt--tggttttag-------------------------
||||||  | || || ||||||||||| || ||||| || || || |||||||| ||| |||| |||||||| ||||||||| |||||||| | || ||||| | |   | |    |  ||    |    | | || |   | | ||    ||  | |  | |   | |||||                           
GGATGCTGCAGGGGCTCAGGTTGTGGCCCATGAGCTCGCACATAGCTGGACTGGCAATCTGATTACTAACAAAACCAATGAAGATTTCTGGCTAAACGAGgtgagtgaacacacgttgttgttgatgttgtcgctgtcagcctttagccctttactatgcaatcagtagttttcctcaaaattcaatgtagtaggaatcg

upper sequence: GLYMA20G38780.1 (Glycine max), 5'ss of exon 1
lower sequence: AT5G13520.1 (Arabidopsis thaliana), 5'ss of exon 1
GGATGCCACCGGTGCACAGGTTGTGGCTCACGAGCTTGCTCACAGTTGGACTGGGAATTTGATCACTAACAAGACCAATGAACATTTCTGGTTGAATGAGgtaatattctccta-ctagtgcgttttgatttgatggcgatca--tgagattgttgttcttgattttggttttag-------------------------------------------------
 || ||||| || || || ||||| ||||||||||| || || || ||||||||||||||||||||||| |  | ||||||||| ||||||||||||||||||   ||    |  || |||| |||   | |  | || |  |  |  |||   |     ||  |  | ||||||                                                 
AGACGCCACTGGAGCTCAAGTTGTAGCTCACGAGCTCGCACATAGCTGGACTGGGAATTTGATCACTAATATCAACAATGAACACTTCTGGTTGAATGAGgtagctttgaattgtcttgtgcttttgcttcttttagctacaaattaggatgtgtaactgtgtgtccgtttttagagtttgccttgttgatgggaaagtgtttatttcatgttcatggcaatag

upper sequence: GLYMA20G38780.1 (Glycine max), 5'ss of exon 1
lower sequence: Vv13s0067g03300.t01 (Vitis vinifera), 5'ss of exon 1
GGATGCCACCGGTGCACAGGTTGTGGCTCACGAGCTTGCTCACAGTTGGACTGGGAATTTGATCACTAACAAGACCAATGAACATTTCTGGTTGAATGAGgta----atattctcctactagtgcgttttgatttgatggcgatcatgagattgttgttc------ttgattttggttttag------------------
|||||| |  || ||||| || ||||| || ||||||||||| || ||||| |||||| ||||||| |||||||  ||||||||||| |||||||||||||||    |||||    | ||        || |  || |   | | |||  || | ||         |||| ||  ||||| |                  
GGATGCAAGTGGAGCACAAGTGGTGGCACATGAGCTTGCTCATAGCTGGACGGGGAATCTGATCACCAACAAGAATAATGAACATTTTTGGTTGAATGAGgtataacatatttgttttctctgattaattcacatggttttgtttatggaatagatgcaaaatgaattgaattgagttttggtttgtctgtttattctgt

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|193691469|gb|FK628424.1|FK628424
EST:     CTGGGAATTTGATCACTAACAAGACCAATGAACATTTCTGGTTNAATGAG                         GGATTCACTACTTATGCGGAGAGGAGGATTGTGGAGGCTGTCCAAGGAGAA
genomic: CTGGGAATTTGATCACTAACAAGACCAATGAACATTTCTGGTTGAATGAGgtaatattct ... ttggttttagGGATTCACTACTTATGCGGAGAGGAGGATTGTGGAGGCTGTCCAAGGAGAA
EST: gi|298164042|gb|HO013687.1|HO013687
EST:     CTGGGAATTTGATCACTAACAAGACCAATGAACATTTCTGGTTGAATGAG                         GGATTCACTACTTATGCGGAGAGGAGGATTGTGGAGGCTGTCCAAGGAGAA
genomic: CTGGGAATTTGATCACTAACAAGACCAATGAACATTTCTGGTTGAATGAGgtaatattct ... ttggttttagGGATTCACTACTTATGCGGAGAGGAGGATTGTGGAGGCTGTCCAAGGAGAA
EST: gi|7691304|gb|AW759497.1|AW759497
EST:     CTGGGAATTTGATCACTAACAAGACCAATGAACATTTCTGGTTGAATGAG                         GGATTCACTACTTATGCGGAGAGGAGGATTGTGGAGGCTGTCCAAGGAGAA
genomic: CTGGGAATTTGATCACTAACAAGACCAATGAACATTTCTGGTTGAATGAGgtaatattct ... ttggttttagGGATTCACTACTTATGCGGAGAGGAGGATTGTGGAGGCTGTCCAAGGAGAA
EST: gi|208183402|gb|GD982842.1|GD982842
EST:     CTGGGAATTTGATCACTAACAAGACCAACGAACATTTCTGGTTGAATGAG                         GGATTCACTACTTATGCGGAGAGGAGGATTGTGGAGGCTGT
genomic: CTGGGAATTTGATCACTAACAAGACCAATGAACATTTCTGGTTGAATGAGgtaatattct ... ttggttttagGGATTCACTACTTATGCGGAGAGGAGGATTGTGGAGGCTGT
EST: gi|254326546|gb|GR841138.1|GR841138
EST:     CTGGGAATTTGATCACTAACAAGACCAATGAACATTTCTGGTTGAATGAG                         GGATTCACTACTTATGCGGAGAGGAGGATTGTGGAGGCTGTCCAAGGAGAA
genomic: CTGGGAATTTGATCACTAACAAGACCAATGAACATTTCTGGTTGAATGAGgtaatattct ... ttggttttagGGATTCACTACTTATGCGGAGAGGAGGATTGTGGAGGCTGTCCAAGGAGAA
EST: gi|193477294|gb|FK441821.1|FK441821
EST:     CTGGGAATTTGATCACTAACAAGACCAATGAACATTTCTGGTTGAATGAG                         GGATTCACTACTTATGCGGAGAGGAGGATTGTGGAGGCT
genomic: CTGGGAATTTGATCACTAACAAGACCAATGAACATTTCTGGTTGAATGAGgtaatattct ... ttggttttagGGATTCACTACTTATGCGGAGAGGAGGATTGTGGAGGCT
EST: gi|19270287|gb|BM886543.1|BM886543
EST:     CTGGGAATTTGATCACTAACAAGACCAATGAACATTTCTGGTTGAATGAG                         GGATTCACTACTTATGCGGAGAGGAGGATTGTGGAGGCTGTCCAAGGAGAA
genomic: CTGGGAATTTGATCACTAACAAGACCAATGAACATTTCTGGTTGAATGAGgtaatattct ... ttggttttagGGATTCACTACTTATGCGGAGAGGAGGATTGTGGAGGCTGTCCAAGGAGAA