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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAGAAGTGCTCAAGCGGAATTATGGACCAGAAATAGATATATGGAGTGCAGGAGTAATTCTCTACATCTTATTGTGTGGTGTTCCCCCATTTTGGGCTGGtaattgcattcataaatcattatattcttactaatgctttatgacaaggttttaatctgccaagttttcttttccttttgttcatgtatatcatgagctttgtgcttatgagcttgggtcttattatttcatcagctcataggaagtctttttattttcttaccttgatgttgattctatgcaga

Basic information

species Glycine max
transcript GLYMA18G43160.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA18G43160.1 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os01g61590.1 (Oryza sativa), 5'ss of exon 2
-CAGAAGTGCTCAAGCGGAATTATGGACCAGAAATAGATATATGGAGTGCAGGAGTAATTCTCTACATCTTATTGTGTGGTGTTCCCCCATTTTGGGCTGGta-attgcattcataaatcattatattcttactaatgctttatgacaaggttttaatctgccaagttttcttttccttttgttcatgtatatcatgagctttgtgcttatgagcttgggtcttattatttcatcagctcataggaagtctttttattttcttaccttgatgttgattctatgcaga
 |||| ||  | ||| | || ||||| || ||||||||||| |||||||||||||| ||  | || || || || ||||| ||||| ||||||||||||||||  |||| ||  |      | | |   |  |||    |   || ||   | |   ||   |||  |  | |    |||| ||||                                                                                                     
CCAGAGGTATTGAAGAGAAACTATGGTCCGGAAATAGATATTTGGAGTGCAGGAGTTATCTTGTATATTTTGTTATGTGGAGTTCCTCCATTTTGGGCTGgtatgttgcttttct----tttaaaaccttcgctatcattggctgtca---tctccctcaaacaatctcgcctggaatttt-ttcag----------------------------------------------------------------------------------------------------

upper sequence: GLYMA18G43160.1 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G311220_T01 (Zea mays), 5'ss of exon 2
-CAGAAGTGCTCAAGCGGAATTATGGACCAGAAATAGATATATGGAGTGCAGGAGTAATTCTCTACATCTTATTGTGTGGTGTTCCCCCATTTTGGGCTGGtaattgcattcataaatcattatattcttactaa---tgctttatgaca-aggttttaatctgccaagttttcttttccttttgttcatgtatatcatgagctttgtgcttatgagcttgggtcttattatttcatcagctcataggaagtctttttattttcttaccttgatgttgattctatgcaga
 | |||||  | ||| | || ||||| ||||||||||| ||||||||||| ||||| || || || || ||||| ||||| || || ||||||||||||||||| | | ||  | || || ||| || | | |||   | || ||   || |     | | |||  ||    |                                                                                                                     
CCTGAAGTATTGAAGAGAAACTATGGGCCAGAAATAGACATATGGAGTGCGGGAGTTATCCTGTATATTTTATTATGTGGAGTCCCTCCATTTTGGGCTGgtaacttctttattgaaccagtattttgtcattaaatttactctacttcagaaaacctgacctggaaaaaactgcag-----------------------------------------------------------------------------------------------------------------

upper sequence: GLYMA18G43160.1 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G088361_T01 (Zea mays), 5'ss of exon 2
-CAGAAGTGCTCAAGCGGAATTATGGACCAGAAATAGATATATGGAGTGCAGGAGTAATTCTCTACATCTTATTGTGTGGTGTTCCCCCATTTTGGGCTGGtaattgcatt-cat-----aaatcattatattct-tactaatgctttatgacaaggttttaatctgccaagttttcttttccttttgttcatgtatatcatgagctttgtgcttatgagcttgggtcttattatttcatcagctcataggaagtctttttattttcttaccttgatgttgattctatgcaga
 | |||||  | ||| |||| |||||||| |||||||| |||||||| || || || ||  | || || || || ||||||||||| |||||||||||||||||  | ||| |||     | | ||   | | || ||  | | ||||    |||    | |   | ||| ||  |  || |                                                                                                               
CCTGAAGTCTTGAAGAGGAACTATGGACCTGAAATAGACATATGGAGCGCTGGTGTTATCTTGTATATTTTGTTATGTGGTGTTCCTCCATTTTGGGCTGgtaaagggatttcatcattgagaacaccttgtcctctagcattacttttgtgcaaa---tgagcttaccaggtaataattgcag-------------------------------------------------------------------------------------------------------------

upper sequence: GLYMA18G43160.1 (Glycine max), 5'ss of exon 4
lower sequence: AT3G51850.1 (Arabidopsis thaliana), 5'ss of exon 2
-CAGAAGTGCTCAAGCGGAATTATGGACCAGAAATAGATATATGGAGTGCAGGAGTAATTCTCTACATCTTATTGTGTGGTGTTCCCCCATTTTGGGCTGGtaattgcattcataaatcattatatt--cttactaatgctttatgacaaggttttaatctgccaagttttcttttccttttgttcatgtatatcatgagctttgtgcttatgagcttgggtcttattatttcatcagctcataggaagtctttttattttcttaccttgatgttgattctatgcaga
 | || ||||| ||||||||||||||||| ||||||||||| |||||||| ||||| ||||| || ||  | |||||||| ||||| || || ||||| |||   |  |  | |   ||  |    |    |    ||    | || |   |     || ||| |  |||||  ||||| |     ||   ||| || | ||| |         ||| |  | || | | ||    || |   ||  ||| ||||  ||     ||                      
CCTGAGGTGCTTAAGCGGAATTATGGACCCGAAATAGATATTTGGAGTGCTGGAGTGATTCTTTATATTCTCTTGTGTGGAGTTCCTCCGTTCTGGGCAGgtctgttaaccccttcctctcttctctagtctttcgatttcctctgccggagc----atttgctagtttttcgattcctctgccggattcttataat-accttagcat------gctagtcttttgtaaatt--gtagttt-cagccagttttttctttgaaccacag--------------------

upper sequence: GLYMA18G43160.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv08s0105g00390.t01 (Vitis vinifera), 5'ss of exon 2
-CAGAAGTGCTCAAGCGGAATTATGGACCAGAAATAGATATATGGAGTGCAGGAGTAATTCTCTACATCTTATTGTGTGGTGTTCCCCCATTTTGGGCTGGtaattgcattcataaatcattatattcttactaatgctttatgacaaggttttaatctgccaagttttcttttccttttgttcatgtatatcatgagctttgtgcttatgagcttgggtcttattatttcatcagctcataggaagtctttttattttcttaccttgatgttgattctatgcaga
 |||| || ||||||||||||||||||||||||||||||||||||||||||||||| |||||||| || ||||||||||| ||||| |||||||||||||||||        | ||||      ||| | |  |||||| | |  |    | |   |||  |   | |   | ||  || ||   || | |   | || |||| |    || |     |                                                                   
CCAGAGGTCCTCAAGCGGAATTATGGACCAGAAATAGATATATGGAGTGCAGGAGTTATTCTCTATATTTTATTGTGTGGGGTTCCTCCATTTTGGGCTGgtaa--------acaaat------attttaatgaatgctctctctc----tctctctctctc---tctctctctctcttcgtgggtggacag-gtcaggtttgggtgagtgtgtgcatgctg----------------------------------------------------------------

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|193492387|gb|FK454797.1|FK454797
EST:     GGAGTAATTCTCTACATCTTATTGTGTGGTGTTCCCCCATTTTGGGCTGA                         ATCTGAGCAAGGAGTTGCACAGGCCATTCTTCGAGGACTTATAGATTTTAA
genomic: GGAGTAATTCTCTACATCTTATTGTGTGGTGTTCCCCCATTTTGGGCTGGtaattgcatt ... tctatgcagaATCTGAGCAAGGAGTTGCACAGGCCATTCTTCGAGGACTTATAGATTTTAA
EST: gi|9205414|gb|BE331638.1|BE331638
EST:     GGAGTAATTCTCTACATCTTATTGTGTGGTGTTCCCCCATTTTGGGCTGA                         ATCTGAGCAAGGAGTTGCACAGGCCATTCTTCGAGGACTTATAGATTTTAA
genomic: GGAGTAATTCTCTACATCTTATTGTGTGGTGTTCCCCCATTTTGGGCTGGtaattgcatt ... tctatgcagaATCTGAGCAAGGAGTTGCACAGGCCATTCTTCGAGGACTTATAGATTTTAA
EST: gi|14259396|gb|BG882304.1|BG882304
EST:     ATTGTGTGGTGTTCCCCCATTTTGGGCTGA                         ATCTGAGCAAGGAGTTGCACAGGCCATTCTTCGAGGACTTATAGATTTTAA
genomic: ATTGTGTGGTGTTCCCCCATTTTGGGCTGGtaattgcatt ... tctatgcagaATCTGAGCAAGGAGTTGCACAGGCCATTCTTCGAGGACTTATAGATTTTAA