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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAAGCACATGCCCACACCTGAACAGTGGACCAATGTGTTCAACCCTGCATTTTCATATTATGCGTACTACTGCTATGCTAACTTATTCACCCTAAACAAGgtgatcatatcttcctccccttcctcaattttctccacgtttctcagagtggtaatgattctgttcaattttcag

Basic information

species Zea mays
transcript GRMZM2G416667_T01
intron # 13
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G416667_T01 (Zea mays), 5'ss of exon 13
lower sequence: LOC_Os05g28180.3 (Oryza sativa), 5'ss of exon 5
AAAGCACATGCCCACACCTGAACAGTGGACCAATGTGTTCAACCCTGCATTTTCATATTATGCGTACTACTGCTATGCTAACTTATTCACCCTAAACAAGgtgatcatatcttcctccccttcctcaattttctccacgtttctcagagtggtaatgattctgttcaattttcag
|||||| ||||| ||||||||||| ||||||||||| |||||||| ||||||||||||||||| || ||||||||||||||||||| ||| || || |||||    | ||   ||||      || |||||||  ||  || ||  ||   ||||   |||||| ||||||    
AAAGCATATGCCTACACCTGAACAATGGACCAATGTCTTCAACCCAGCATTTTCATATTATGCATATTACTGCTATGCTAACTTATACACACTCAATAAGgtaggaaaattgccctcatacctct-aattttcctcattttgct-ggaaaagtaacacttctgtgcaatttag--

upper sequence: GRMZM2G416667_T01 (Zea mays), 5'ss of exon 13
lower sequence: GLYMA01G29470.2 (Glycine max), 5'ss of exon 14
AAAGCACATGCCCACACCTGAACAGTGGACCAATGTGTTCAACCCTGCATTTTCATATTATGCGTACTACTGCTATGCTAACTTATTCACCCTAAACAAGgtgatcatatcttcctcc----ccttcctcaattttctccacgtt------------tctcagagtggtaatgattctgttcaattttcag---------
||| |||||||| |||||||| || ||||| ||||| ||||| || ||||||||||| ||||  || ||||| ||||| ||  | | |||| ||||||||||    |  | || ||||      |   |||||||| | |   ||            | |||    |  ||  |   | ||   |  | |          
AAAACACATGCCTACACCTGAGCAATGGACTAATGTTTTCAATCCGGCATTTTCATACTATGTCTATTACTGTTATGCAAATCTTTACACCTTAAACAAGgtatgtaactttttctccagaatatgtatcaattttttacggcttatctatttactctttcaagaagaaaacaagcttcttttttactgattatggaaag

upper sequence: GRMZM2G416667_T01 (Zea mays), 5'ss of exon 13
lower sequence: Vv08s0105g00570.t01 (Vitis vinifera), 5'ss of exon 13
AAAGCACATGCCCACACCTGAACAGTGGACCAATGTGTTCAACCCTGCATTTTCATATTATGCGTACTACTGCTATGCTAACTTATTCACCCTAAACAAGgtgatcatatct------------tcctccccttcctcaattttctc---cacgtttctcag-agtggtaatgattctgttcaattttcag---------
||| || ||||| || || |  |||||||||||||  ||||| |||||||||||||| ||||  |||||||| ||||||||| | |  ||  | ||||||||      ||              ||||||||| | |  |||||  |    | | |   ||| | || |  || ||   |||||  |   |         
AAAACATATGCCTACTCCAGCTCAGTGGACCAATGCTTTCAATCCTGCATTTTCATACTATGTCTACTACTGTTATGCTAACCTCTATACATTGAACAAGgttcgtgcatgcacttagaaaatatcctcccctacttttattttgccatatatgatcaccagtaatgcttttggtttgtttcaacatatggtttgatagt

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|18661413|gb|BM501264.1|BM501264
EST:     TTTCATATTATGCGTACTACTGCTATGCTAACTTATTCACCCTAAACAAG                         CTGCGTGAGTCAAAGGGAATGACCACTATCAAATTCCGTCCACATGCTGGA
genomic: TTTCATATTATGCGTACTACTGCTATGCTAACTTATTCACCCTAAACAAGgtgatcatat ... caattttcagCTGCGTGAGTCAAAGGGAATGACCACTATCAAATTCCGTCCACATGCTGGA
EST: gi|5871432|gb|AW017903.1|AW017903
EST:     TTTCATATTATGCGTACTACTGCTATGCTAACTTATTCACCCTAAACAAG                         CTGCGTGAGTCAAAGGGAATGACCACTATCAAATTCCGTCCACATGCTGGA
genomic: TTTCATATTATGCGTACTACTGCTATGCTAACTTATTCACCCTAAACAAGgtgatcatat ... caattttcagCTGCGTGAGTCAAAGGGAATGACCACTATCAAATTCCGTCCACATGCTGGA