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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATGTGCACCATCCTTATAAACCTCTTGTTGAGGCAATAAAGAAATTCAAAGTTGCTCAAAATGCCCTTGCTCAAGTTGCGTGGAATTTTGTAAATGATGGgtatgaagattacacaaatttttgttaaggccagtggcctttgatttttctttcctgaaatgaggatgtgatatgcag

Basic information

species Glycine max
transcript GLYMA15G41040.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA15G41040.1 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os12g30020.1 (Oryza sativa), 5'ss of exon 5
ATGTGCACCATCCTTATAAACCTCTTGTTGAGGCAATAAAGAAATTCAAAGTTGCTCAAAATGCCCTTGCTCAAGTTGCGTGGAATTTTGTAAATGATGGgtatg--aagattacacaaatttttgttaaggccagtggcctttgatttttctttc---ctgaaatgaggatgtgatatgcag
||||||| ||||| || || ||| | ||||| |||||||  ||||| ||||||||||||||||| |||||||| ||||| ||||||||||| |||||||||||||  |    ||| |  ||| |  |||  |  |     |  | || | | |  |    | ||| | |  | |  | | |||
ATGTGCATCATCCATACAAGCCTTTGGTTGAAGCAATAAGAAAATTTAAAGTTGCTCAAAATGCGCTTGCTCAGGTTGCATGGAATTTTGTCAATGATGGgtatgctattgatacccttattatctttagagatatcactcaatcatgtatataacacgttaaaaagggcgtatattgtacag

upper sequence: GLYMA15G41040.1 (Glycine max), 5'ss of exon 4
lower sequence: AC233979.1_FGT009 (Zea mays), 5'ss of exon 4
ATGTGCACCATCCTTATAAACCTCTTGTTGAGGCAATAAAGAAATTCAAAGTTGCTCAAAATGCCCTTGCTCAAGTTGCGTGGAATTTTGTAAATGATGGgtatgaagattacacaaatttttgttaaggccagtggcctttg---atttttctttcctgaaatgaggatgtgatatgcag
||||| |||||||||| || ||  | ||||| |||||||| | |||||| |||||||||||||| |||||||||||||| ||||||||||| |||||||||||||   |    ||   |  |  |||     |||   |       ||   | ||| ||         | | | | | |||
ATGTGAACCATCCTTACAAGCCCTTGGTTGAAGCAATAAAAATATTCAAGGTTGCTCAAAATGCACTTGCTCAAGTTGCCTGGAATTTTGTCAATGATGGgtatgctaaaattactcttcctcattacaaatagtaatccacaaacatccctatttactacgccttaaaaggggtgtacag

upper sequence: GLYMA15G41040.1 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G308570_T02 (Zea mays), 5'ss of exon 13
ATGTGCACCATCCTTATAAACCTCTTGTTGAGGCAATAAAGAAATTCAAAGTTGCTCAAAATGCCCTTGCTCAAGTTGCGTGGAATTTTGTAAATGATGGgtatg--aagattacacaa-atttttgttaaggccagtggcctttgatttttctttcctgaaatgaggatgtgatatgcag
||||| |||||||||| || ||  | ||||| |||||||| |||||  | |||||||||||||| ||||| |||||||| ||||||||||| |||||||||||||  || ||||| |   ||   ||  ||    | |   |    ||   |  || ||  |      | | | | |||||
ATGTGAACCATCCTTACAAGCCCTTGGTTGAAGCAATAAAAAAATTTGAGGTTGCTCAAAATGCACTTGCGCAAGTTGCCTGGAATTTTGTCAATGATGGgtatgctaaaattactcttcatcactgcaaatagtaatccacaaacatgcctacttactataccttaaaaggggtgtgcag

upper sequence: GLYMA15G41040.1 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G115670_T01 (Zea mays), 5'ss of exon 4
ATGTGCACCATCCTTATAAACCTCTTGTTGAGGCAATAAAGAAATTCAAAGTTGCTC---AAAATGCCCTTGCTCAAGTTGCGTGGAATTTTGTAAATGATGGgtatg--aagattacacaaatttttgttaaggccagtggcctttgatt-tttctttcctgaaatgagga---tgtgatatgcag
   |  ||||| |||| || ||  | ||||| ||||||| || |||||| |||| |    ||| | | ||| |||| ||||| |||||||||||||||||||||||||  |    ||| |  | | | |||       |  |       || | | | | ||  | | |  |   ||   | | |||
---TTGACCATGCTTACAAGCCCTTGGTTGAAGCAATAAGGAGATTCAATGTTGGTAGTAAAAGTTCGCTTCCTCAGGTTGCCTGGAATTTTGTAAATGATGGgtatgctagtgctacccttactgtcgtttgaaattgcagttcacagttgtgtatctactacacttaatattgtgcactgtacag

upper sequence: GLYMA15G41040.1 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G377311_T01 (Zea mays), 5'ss of exon 5
ATGTGCACCATCCTTATAAACCTCTTGTTGAGGCAATAAAGAAATTCAAAGTTGCTCAAA---ATGCCCTTGCTCAAGTTGCGTGGAATTTTGTAAATGATGGgtatgaagattacacaaatt---tttgttaaggccagtggcctttgatttttctttcctgaaatgagga---tgtgatatgcag
   |  ||||| | ||||| ||  | ||||| ||||||| || ||||||  ||| | |||    | | ||| |||| ||||| |||||||||||||||||||||||||    |   ||   ||   | | || |    |  |  |   | | | | | | ||  | | |      ||   | | |||
---TTAACCATGCCTATAAGCCCTTGGTTGAAGCAATAAGGAGATTCAATATTGATAAAAGAAGTCCACTTCCTCAGGTTGCCTGGAATTTTGTAAATGATGGgtatgctagtgctaccctttctgtcttttgaaattacagttcacagttgtgtatctactacacttaatgttgtgcactgtacag

upper sequence: GLYMA15G41040.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv19s0027g01670.t01 (Vitis vinifera), 5'ss of exon 4
ATGTGCACCATCCTTATAAACCTCTTGTTGAGGCAATAAAGAAATTCAAAGTTGCTCAAAATGCCCTTGCTCAAGTTGCGTGGAATTTTGTAAATGATGGgtatga-agattaca-caaatttttgttaaggccagtggcctttgatttttctttcctgaaatgaggatgtgatatgcag
||||||||||||| |||||||| ||||| |||||||||||||||||||| ||||||||||||||||||||||||||||| ||||||||||| ||||||||||||||  | || |  |   ||||| |  | |  | ||  ||||  |  ||||   ||  |    ||| | |  ||||||
ATGTGCACCATCCATATAAACCCCTTGTAGAGGCAATAAAGAAATTCAAGGTTGCTCAAAATGCCCTTGCTCAAGTTGCTTGGAATTTTGTCAATGATGGgtatgatgggttgcttcttttttttatgcacgttattgttctttcttccttctcatcttgacctgggaagcggcatgcag

upper sequence: GLYMA15G41040.1 (Glycine max), 5'ss of exon 4
lower sequence: EFJ27727 (Selaginella moellendorffii), 5'ss of exon 4
ATGTGCACCATCCTTATAAACCTCTTGTTGAGGCAATAAAGAAATTCAAAGTTGCTCAAAATGCCCTTGCTCAAGTTGCGTGGAATTTTGTAAATGATGGgta------tgaagatta-cacaaatttttgttaaggccagtg-------gcctttgatttttctttcctgaaatgaggatgtgat-atgcag----------------
| || |||||||| || | ||| || || |  || ||||| || ||||| ||  ||||| |||| || ||||||||||||||||| ||||| |||||||||||       | | |  |  |  || ||  ||   | |  | |       | |  || | |||| |  ||   |||||   |  || | ||||                
ACGTTCACCATCCATACAGACCGCTGGTGGCCGCCATAAAAAAGTTCAACGTCTCTCAACATGCGCTGGCTCAAGTTGCGTGGAACTTTGTCAATGATGGgtaagctctcgcacaccagtaggaacttcagtctcgactggagtgttggagtccgtgttgtttcatcactttgatgagatgggaatgaagcagtggaagggatgtgcag

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|120530094|gb|EH258228.1|EH258228
EST:     GTTGCTCAAAATGCCCTTGCTCAAGTTGCGTGGAATTTTGTAAATGATGG                         ACTTCGGACATCACTTTGCTTGCAATTTAAGCCTCATCACATTGCAGCTGG
genomic: GTTGCTCAAAATGCCCTTGCTCAAGTTGCGTGGAATTTTGTAAATGATGGgtatgaagat ... tgatatgcagACTTCGGACATCACTTTGCTTGCAATTTAAGCCTCATCACATTGCAGCTGG