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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGCAGCCAACGGAGCAGGGGCTTCGGAGACAGCAGATGATGATTTGCCCAGTGTCATGACTTGCGCAAACTACCTTAAACTCCCTCCTTATTCTACAAAGgtgagtcatgtcttctattcttcttgagtccatgttagtgtggttgttggtgagcctgaggagttgtatgttattgaaacag

Basic information

species Arabidopsis thaliana
transcript AT4G38600.2
intron # 16
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G38600.2 (Arabidopsis thaliana), 5'ss of exon 16
lower sequence: GRMZM2G049141_T02 (Zea mays), 5'ss of exon 16
AGCAGCCAACGGAGCAGGGGCTTCGGAGACAGCAGATGATGATTTGCCCAGTGTCATGACTTGCGCAAACTACCTTAAACTCCCTCCTTATTCTACAAAGgtgagtcatgtcttctattcttcttgagtccatgttagtgtggttgttggtgagcctgaggagttgtatgttattgaaacag----------------------
     | || | | | || ||  | ||| | ||||||||||||||||| ||||||||||||||||| ||||| |||||||| || || || || || |||||  |     |  | | | ||| |||  |   |||   | |   |  ||    | || |  | |||    ||    || |                        
TAATTCAAATGCAACTGGAGCGACAGAGTCTGCAGATGATGATTTGCCTAGTGTCATGACTTGCGCCAACTATCTTAAACTACCACCATACTCCACCAAGgtatgc----ttctttctgctttttggctaactgtggttatatctcctgtattgtcttataaattgaggattcagaaacccagtcaccaaagaattacttcata

upper sequence: AT4G38600.2 (Arabidopsis thaliana), 5'ss of exon 16
lower sequence: GLYMA11G11490.1 (Glycine max), 5'ss of exon 16
AGCAGCCAACGGAGCAGGGGCTTCGGAGACAGCAGATGATGATTTGCCCAGTGTCATGACTTGCGCAAACTACCTTAAACTCCCTCCTTATTCTACAAAGgtgagtca-tgtcttctattcttcttga-------gtccatgttagtgtggttgttggt---gagcctgaggagttgtatgt---tattgaaacag
  || | || ||    ||  |||| ||   ||| |||||||| ||||| ||||| ||||| || ||||| |||||||| || |||||||||||||| |||||    || ||      ||| ||  | |        | ||||| |  |||  | |||||   || |    |   ||  || |   | || ||||||
TTCATCTAATGGGAACGGTCCTTCAGAATTAGCGGATGATGACTTGCCAAGTGTGATGACGTGTGCAAATTACCTTAAGCTTCCTCCTTATTCTACCAAGgtagaacactgcaaagcattgttggtaatatgatcatgcatgtcaaagtgtcttttggtgttgaactgttgatatttgatttccattttaaaacag

upper sequence: AT4G38600.2 (Arabidopsis thaliana), 5'ss of exon 16
lower sequence: GLYMA12G03640.1 (Glycine max), 5'ss of exon 16
AGCAGCCAACGGAGCAGGGGCTTCGGAGACAGCAGATGATGATTTGCCCAGTGTCATGACTTGCGCAAACTACCTTAAACTCCCTCCTTATTCTACAAAGgtgagtcatgtcttctattcttcttgagtccatgttagtgtggttgttggtgagcctgaggagttgtatgtta----ttgaaacag
  || | |||||    ||| |||| ||   |||||||||||| ||||| ||||| ||||| || ||||| ||||| || || |||||||||||||| |||||    ||   || | |  | |  |  ||  || | |   ||  |||    | | ||   ||  | |   ||     || ||||||
TTCATCTAACGGGAATGGGCCTTCAGAATTAGCAGATGATGACTTGCCAAGTGTGATGACGTGTGCAAATTACCTGAAGCTTCCTCCTTATTCTACCAAGgtagaaca---ctgcaaagcattgttggtt-atatgatcatgcatgtcaaagtgtcttttgatctttgatttccattttaaaacag

upper sequence: AT4G38600.2 (Arabidopsis thaliana), 5'ss of exon 16
lower sequence: GLYMA06G00600.2 (Glycine max), 5'ss of exon 16
AGCAGCCAACGGAGCAGGGGCTTCGGAGACAGCAGATGATGATTTGCCCAGTGTCATGACTTGCGCAAACTACCTTAAACTCCCTCCTTATTCTACAAAGgt---gagtcatgtcttct-----attcttcttgagtc--catgttagtgtggttgttggtgagcct----gaggagttgtatgttattgaaacag----
  || | || ||    ||  |||| ||  ||||||||||||| ||||| ||||| ||||| || || || ||||| ||||| |||||||| ||||| |||||   | |  ||| | |       ||  || ||  |||   ||||     |   | |   |   |||    | ||     | |||| ||  ||       
TTCATCTAATGGGAATGGACCTTCAGAATCAGCAGATGATGACTTGCCTAGTGTGATGACATGTGCTAATTACCTGAAACTTCCTCCTTACTCTACCAAGgtactgtgatatgacatacgagaaatgatttttacgtcacaatgtcttcctacctttacttacaccttgttgggggaaaatgtgtttttctaagtttcta

upper sequence: AT4G38600.2 (Arabidopsis thaliana), 5'ss of exon 16
lower sequence: GLYMA04G00530.1 (Glycine max), 5'ss of exon 16
AGCAGCCAACGGAGCAGGGGCTTCGGAGACAGCAGATGATGATTTGCCCAGTGTCATGACTTGCGCAAACTACCTTAAACTCCCTCCTTATTCTACAAAGgtga-gtcatgtcttctattcttcttgagtcc-atgttagtgtggttgttggtg-agcctgaggagttgtatgttattgaaacag---------------
  || | || ||    ||  |||| ||  ||||||||||||| ||||| ||||| ||||| || || || ||||| ||||| |||||||| ||||| |||||   || || |    |||      ||| |   | || |   ||  |        | ||| |    |||| ||      |                    
TTCATCTAATGGGAATGGACCTTCAGAATCAGCAGATGATGACTTGCCTAGTGTGATGACATGTGCTAATTACCTGAAACTTCCTCCTTACTCTACCAAGgtactgtgatatggcatatgagaaatgatttttacgtcacaatgtcttccaacccatccttacaccttgtttggggaaaatgtgtttttttctaagtttc

upper sequence: AT4G38600.2 (Arabidopsis thaliana), 5'ss of exon 16
lower sequence: Vv03s0038g02340.t01 (Vitis vinifera), 5'ss of exon 16
AGCAGCCAACGGAGCAGGGGCTTCGGAGACAGCAGATGATGATTTGCCCAGTGTCATGACTTGCGCAAACTACCTTAAACTCCCTCCTTATTCTACAAAGgtgagtcatgtcttctattcttcttga-gtccatgttagtgtggttgttggtgagcctgaggagttgtatgttattgaaacag
|||        |  | ||  | |||||  |||| |||||||| ||||||||||||||||| || || || ||||| || || ||||| || ||||| |||||  |  || | |   | |  |   || ||||| |      |||   || ||   | | |    | |  | |  || || |||
AGCCAATGGTAGTTCTGGCCCATCGGAATCAGCGGATGATGACTTGCCCAGTGTCATGACATGTGCTAATTACCTCAAGCTTCCTCCGTACTCTACCAAGgtatggtatttttgtgaattgtgaagatgtccaggaactcatgg--atttgttgtcattaaccatcgcct-tcctttaaccag

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|125157561|gb|EL186572.1|EL186572
EST:     GTGTCATGACTTGCGCAAACTACCTTAAACTCCCTCCTTATTCTACAAAG                         GAAATCATGTACAAGAAACTGCTCTACGCCATCAACGAAGGGCAAGGATCG
genomic: GTGTCATGACTTGCGCAAACTACCTTAAACTCCCTCCTTATTCTACAAAGgtgagtcatg ... attgaaacagGAAATCATGTACAAGAAACTGCTCTACGCCATCAACGAAGGGCAAGGATCG