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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGACATATTCAAGATGGTGAAGATGATAATTCAGCGCCAATATGATCCTGTAATACTTTTTAGCTTTAGCAAAAGGGAATGCGAATTTCTTGCTATGCAGgtatgcttttttgtagattattattcaatttagagaaccagaaaattatgtggtctggaggaagaaatcgagttggttcagttgattttgactatcttccattgggtgatag

Basic information

species Zea mays
transcript GRMZM2G040995_T01
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G040995_T02 (Zea mays), 5'ss of exon 4
lower sequence: LOC_Os12g18140.1 (Oryza sativa), 5'ss of exon 4
TGACATATTCAAGATGGTGAAGATGATAATTCAGCGCCAATATGATCCTGTAATACTTTTTAGCTTTAGCAAAAGGGAATGCGAATTTCTTGCTATGCAGgtatgcttttttgtagattattattcaatttagagaaccagaaaattatgtggtctggaggaagaaatcgagttggttcagttgattttgactatcttccat-tgggtgatag
 ||||||||||||||||||||||||||||||||||| |||||||| || || |||||||| ||||||||||||||||| || ||||||||||||||||||||||| | || |||| |||| | |   ||||||| ||| |||| ||| | | |  | |   ||     ||| || |||   ||  |||| |||  | | | | |  |  ||||
CGACATATTCAAGATGGTGAAGATGATAATTCAGCGTCAATATGACCCAGTGATACTTTTCAGCTTTAGCAAAAGGGAGTGTGAATTTCTTGCTATGCAGgtatgttcttctgtaaattactgt--gatttagataac-agaagattttattgatttggcaaacgggccgatttagtt---tttttttttactgcccttcttgtatgctatag

upper sequence: GRMZM2G040995_T02 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA08G47700.1 (Glycine max), 5'ss of exon 3
TGACATATTCAAGATGGTGAAGATGATAATTCAGCGCCAATATGATCCTGTAATACTTTTTAGCTTTAGCAAAAGGGAATGCGAATTTCTTGCTATGCAGgtatgcttttttgtagattattattcaatttagagaaccagaaaattatgtggtctggaggaagaaatcgagttggttcagttgattttgactatcttccattgggtgatag
||||||||||||||||||||| ||||| |||||||| |||||||| ||||| ||||| || ||||||||||||||||| || || |||||||| |||||||||   |       | ||| || | || | |  | |      |  |  | |  |    | |      |    ||| ||| || |                            
TGACATATTCAAGATGGTGAAAATGATCATTCAGCGTCAATATGACCCTGTCATACTCTTCAGCTTTAGCAAAAGGGAGTGTGAGTTTCTTGCAATGCAGgtaaagtcc-----aaattcttgtgcattgtcaaaagtatctatttcttttcattctaatgt---cttttttttgtttccgtag----------------------------

upper sequence: GRMZM2G040995_T02 (Zea mays), 5'ss of exon 4
lower sequence: AT1G59760.1 (Arabidopsis thaliana), 5'ss of exon 4
TGACATATTCAAGATGGTGAAGATGATAATTCAGCGCCAATATGATCCTGTAATACTTTTTAGCTTTAGCAAAAGGGAATGCGAATTTCTTGCTATGCAGgtatgcttttttgtagattatt-attcaatttagagaaccagaaaattatgtggtctggaggaagaaatcgagttggttcagttgattttgactatcttccattgggtgatag
||| || |||||  ||||||| |||||||||||||| ||||||||||| || ||  | || || || ||||||| |||||||||    ||||||||||||||  | ||  |  |    | ||  |  |||  |   ||  | |  |||    |      |      | | || ||  ||||        ||  | | | || |          
TGATATTTTCAAATTGGTGAAAATGATAATTCAGCGGCAATATGATCCCGTGATTTTGTTCAGTTTCAGCAAAAAGGAATGCGAGGCACTTGCTATGCAGgttagtttcctcttcttctgtttgtctaatgcaagtaaataaatcatttaccga--caaattttttatttgacttctttcaaa-atccctggatctttaccct----------

upper sequence: GRMZM2G040995_T02 (Zea mays), 5'ss of exon 4
lower sequence: Vv06s0009g01750.t01 (Vitis vinifera), 5'ss of exon 4
TGACATATTCAAGATGGTGAAGATGATAATTCAGCGCCAATATGATCCTGTAATACTTTTTAGCTTTAGCAAAAGGGAATGCGAATTTCTTGCTATGCAGgtatgcttttttgtagattattattcaatttagagaaccagaaaattatgtggtctggaggaagaaatcgagttggttcagttgattttgactatcttcc-attgggtgatag-
|||||| |||||||||||||| ||||| |||||||| || |||||||| || |||||||| ||||| || |||||||| |||||||||||||| |||||||||    | | |         | |     |  |||||  | ||||  |   |   ||| ||      ||| |||   |   | | |||  || | ||    |  | |   |   
TGACATTTTCAAGATGGTGAAAATGATTATTCAGCGTCAGTATGATCCCGTGATACTTTTCAGCTTCAGTAAAAGGGATTGCGAATTTCTTGCAATGCAGgtaaatctctct--------ctctctctctctgagaaggaaaaaaaaaaaagaaatggggg------tcgggttaactacctaggtttccaccacctggagacagagccctgat

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|78087134|gb|DV515527.1|DV515527
EST:     TAATACTTTTTAGCTTTAGCAAAAGGGAATGCGAATTTCTTGCTATGCAG                         ATGGCTAAGATGGACTTGAATGAGGATGATGAGAAAGGCAA-CATCGAAAC
genomic: TAATACTTTTTAGCTTTAGCAAAAGGGAATGCGAATTTCTTGCTATGCAGgtatgctttt ... tgggtgatagATGGCTAAGATGGACTTGAATGAGGATGATGAGAA-GGCAAACATCGAAAC