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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGTCACGCGGGCCTCTTCAACCTCTGTATAGTAGTCCTTGTTGCTGTGAATAGCCGACTCATCATTGAGAATTTAATGAAGgttttgcctcttccatgtttaattgtgcattcacctgcaacaattttctgttctttttatttatgaccttgattttgacggttcgggttttgttgtctgctttaatgagtgttttatttgttctgcag

Basic information

species Glycine max
transcript GLYMA13G16560.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G16560.1 (Glycine max), 5'ss of exon 2
lower sequence: LOC_Os06g36800.1 (Oryza sativa), 5'ss of exon 2
AGTCACGCGGGCCTCTTCAACCTCTGTATAGTAGTCCTTGTTGCTGTGAATAGCCGACTCATCATTGAGAATTTAATGAAGgtt-----ttgcctcttccatgtttaattgtg--cattcacctgcaacaattttctgttct-ttttatttatgaccttgattttgacggttcgggttttgttgtctgctttaatgagtgttt-tatttgtt-ctgcag
|| || || |||||  | ||||| || || || || || ||||||||||| ||| |||| || |||||||||||||||||||||     |    |||| |    || ||| |   ||   |   | | || ||   | || | |  | ||   ||| |   | ||| |  ||   ||| || | |      |  | | | | | ||||||   ||||||
AGCCATGCAGGCCTTCTGAACCTATGCATTGTTGTGCTGGTTGCTGTGAACAGCAGACTTATTATTGAGAATTTAATGAAGgttcattatcatttcttgctctctttattttccccagggagtagtagcatttacttattatatgcttttctcgacatgcctcttgtctattatagttctgatttaactcattctcattatctgtatttgccgctgcag

upper sequence: GLYMA13G16560.1 (Glycine max), 5'ss of exon 2
lower sequence: GRMZM2G169089_T01 (Zea mays), 5'ss of exon 2
AGTCACGCGGGCCTCTTCAACCTCTGTATAGTAGTCCTTGTTGCTGTGAATAGCCGACTCATCATTGAGAATTTAATGAAGgttt--tgcct-cttccatgtttaattgt----gcattcacctgcaa-----caattttctgttctttt----tatttatgaccttgattttgacggttcgggttttgttg-tctgctttaatgagtgttttatttgt-tctgcag------
|| || || || ||  | || || || || || || ||  | || ||||| ||| ||||||| ||||||||||||||||||||||  | | | ||| | | ||| ||| |     | ||||  | ||        | |   | | ||| |    ||  | ||  |||  |  ||    || |  |  |||   ||||    | |  |||||||||||   |  || |      
AGCCATGCTGGTCTTCTGAATCTATGCATTGTTGTTCTGATCGCAGTGAACAGCAGACTCATTATTGAGAATTTAATGAAGgtttattactttctttcttttttcattttcctcaccttcatttacagatccctcaatccatctccttctgaaatacatctggtcttcttcctgcgcatttgtctagtgtaaatctgacacattctgtgttttatttaaattggctggtgcag

upper sequence: GLYMA13G16560.1 (Glycine max), 5'ss of exon 2
lower sequence: AT2G19450.1 (Arabidopsis thaliana), 5'ss of exon 2
AGTCACGCGGGCCTCTTCAACCTCTGTATAGTAGTCCTTGTTGCTGTGAATAGCCGACTCATCATTGAGAATTTAATGAAGgttt--tgcctcttccatgtttaattgtgcattcacctgcaacaattttctgttctttttatttatgaccttgattttgacggttcgggttttgttgtctgctttaatgagtgttttatttgttctgcag
|| || || ||  | |||||||||||| ||||||| ||| ||||||| || ||  |||||||||| || ||| | ||||||||||  ||   |||   | |    ||  | ||| |  |||   ||  ||   |       |   || || ||| | |||          | | |                                    
AGCCATGCCGGATTATTCAACCTCTGTGTAGTAGTTCTTATTGCTGTAAACAGTAGACTCATCATCGAAAATCTTATGAAGgtttgctgttacttgtttctccttttaggaattgaattgcttgaaaatt---tatcagagacgaataactttgttgttgctatcattcatgtag------------------------------------

upper sequence: GLYMA13G16560.1 (Glycine max), 5'ss of exon 2
lower sequence: Vv11s0016g01930.t01 (Vitis vinifera), 5'ss of exon 2
AGTCACGCGGGCCTCTTCAACCTCTGTATAGTAGTCCTTGTTGCTGTGAATAGCCGACTCATCATTGAGAATTTAATGAAGgttttgcctcttccatgtttaattgtgcattcacctgcaacaattttctgttctttttatttatga---ccttgattttgacggttcgggttttgttgtctgctttaatgagtgttttatttgttctgcag----------------------------------------------------
||||| ||||| ||||||||||||||||||||||| ||||| ||||| || ||||| || |||||||||||| | ||||||||||  |  | ||||| |   |   |  || ||  || |      ||    |  ||| ||  |||     |||| |||| |  | | |  | ||    |    |||||    ||    ||   ||||  |                                                     
AGTCATGCGGGTCTCTTCAACCTCTGTATAGTAGTGCTTGTAGCTGTAAACAGCCGGCTTATCATTGAGAATCTTATGAAGgtttgtcaccctccatctaatacgatcaatccagttggatggtgatttctataatttaatgcatgtatttcttgttttttatagct-gactcttaaatttcattttaaatcttgacacatcatttcttaaaaataattttgagcctacagctataggcagcttatctctcattgttgttgcag

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|298164030|gb|HO013675.1|HO013675
EST:     TAGTCCTTGTTGCTGTGAATAGCCGACTCATCATTGAGAATTTAATGAAG                         TATGGTTGGTTGATCAAATCTGGCTTTTGGTTTAGCTC
genomic: TAGTCCTTGTTGCTGTGAATAGCCGACTCATCATTGAGAATTTAATGAAGgttttgcctc ... tgttctgcagTATGGTTGGTTGATCAAATCTGGCTTTTGGTTTAGCTC
EST: gi|18041405|gb|BM309699.1|BM309699
EST:     TAGTCCTTGTTGCTGTGAATAGCCGACTCATCATTGAGAATTTAATGAAG                         TATGGTTGGTTGATCAAATCTGGCTTTTGGTTTAGCTCAAAGTCATTGAGA
genomic: TAGTCCTTGTTGCTGTGAATAGCCGACTCATCATTGAGAATTTAATGAAGgttttgcctc ... tgttctgcagTATGGTTGGTTGATCAAATCTGGCTTTTGGTTTAGCTCAAAGTCATTGAGA
EST: gi|26047138|gb|CA784021.1|CA784021
EST:     TAGTCCTTGTTGCTGTGAATAGCCGACTCATCATTGAGAATTTAATGAAG                         TATGGTTGGTTGATCAAATCTGGCTTTTGGTTTAGCTCAAAGTCATTGAGA
genomic: TAGTCCTTGTTGCTGTGAATAGCCGACTCATCATTGAGAATTTAATGAAGgttttgcctc ... tgttctgcagTATGGTTGGTTGATCAAATCTGGCTTTTGGTTTAGCTCAAAGTCATTGAGA