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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGAGATTCAGTGAAATGTGAAGTTGTTGATGGTGGAGAACTCAAGTCTAGAAGGCATCTAAATGTTCGAGGAAAAAGTGCAACACTGCCATCAATTACTGgttggacatggaatgagtccccaatgtttatagcaaatgctttgttttgcaattcaaaataacaatttgctttgatttgctgcag

Basic information

species Vitis vinifera
transcript Vv16s0050g02180.t01
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv16s0050g02180.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: GRMZM2G152686_T01 (Zea mays), 5'ss of exon 4
GGAGATTCAGTGAAATGTGAAGTTGTTGATGGTGGAGAACTCAAGTCTAGAAGGCATCTAAATGTTCGAGGAAAAAGTGCAACACTGCCATCAATTACTGgttggacatggaatgagtccccaatgtttatagcaaatgctttgttttgcaattcaaaataacaatttgctttgatttgctgcag
| |||||| ||||||||||||||| |||| ||||| ||| | || ||||| | ||||| |||||||| ||||| |||||||| |||||||||| |||||| | || | | | ||| || | | | | | | | | | ||| ||| || | | |
GAAGATTCTGTGAAATGTGAAGTTATTGACGGTGGTGAATTGAAATCTAGGCGCCATCTGAATGTTCGTGGAAAGAGTGCAACCTTGCCATCAATAACTGgtaatagtcggca--acttttttctgtctactggatctaatctatatatccttgtttcatacacgttt---caaatgtacag---

upper sequence: Vv16s0050g02180.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: GLYMA20G30430.1 (Glycine max), 5'ss of exon 4
GGAGATTCAGTGAAATGTGAAGTTGTTGATGGTGGAGAACTCAAGTCTAGAAGGCATCTAAATGTTCGAGGAAAAAGTGCAACACTGCCATCAATTACTGgttggacatggaatgagt-ccccaatgtttatagcaaatgctttgttttgcaattcaaaataacaatttgctttgatttgctgcag---------------------------------------------------------------------------
| ||||| ||||||||||||||||||||||| ||||| |||||||| || || ||| | |||||| |||||||||||||||||||||| || || ||||||| || | || | | || || || | | || |||| | | || | || || | |
GAGGATTCTGTGAAATGTGAAGTTGTTGATGGAGGAGAGCTCAAGTCAAGGAGACATTTGAATGTTAGAGGAAAAAGTGCAACACTGCCTTCCATAACTGgttagattctggatcattattcctatacttg-attgtttttttaattttaaaccatttcttctacatgcctctccatatgtttgggtactggcaaatgggtgaggattaaggttttgttggtttcccaaggacatataatatttgtgttgatttgctacag

upper sequence: Vv16s0050g02180.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: GLYMA10G37210.1 (Glycine max), 5'ss of exon 4
GGAGATTCAGTGAAATGTGAAGTTGTTGATGGTGGAGAACTCAAGTCTAGAAGGCATCTAAATGTTCGAGGAAAAAGTGCAACACTGCCATCAATTACTGgttggacatggaatgagt-------ccccaatgtttatagcaaatgctttgttttgcaattcaaaataacaatttgctttgatttgctgcag----------------------------------------------------------------------
| ||||| ||||||||||||||||||||||| ||||| |||||||| || || ||| | |||||| ||||||||||||||||||| || || || ||||||| || | || | | | || || |||| ||||| ||| | || | | | | || | | | |
GAGGATTCTGTGAAATGTGAAGTTGTTGATGGAGGAGAGCTCAAGTCAAGGAGACATTTGAATGTTAGAGGAAAAAGTGCAACACTTCCTTCCATCACTGgttagattccggattattatttctatcttgattatttcttttaatg-tttgtccatttcttctacatgcctctcca-tatatttgggtactgacaactgggtgagggttaaggttttgttggtttcccaaggacatataatatttgtgttgatttgctacag

upper sequence: Vv16s0050g02180.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: GLYMA16G28980.1 (Glycine max), 5'ss of exon 4
GGAGATTCAGTGAAATGTGAAGTTGTTGATGGTGGAGAACTCAAGTCTAGAAGGCATCTAAATGTTCGAGGAAAAAGTGCAACACTGCCATCAATTACTGgttgga---catggaatgagtccc--------caatgttt--atagcaaatgctttgt----tttgcaattcaaaataaca-atttgctttgatttgctgcag--------------------------------------------
| ||||| ||||||||||||||||||||||| ||||| |||||||| || | ||| | || ||| ||||||||||||||||||| || ||||| |||||| || || |||| |||| ||||| | | | | | |||||| ||| | | | | ||||| | ||| ||
GAGGATTCTGTGAAATGTGAAGTTGTTGATGGAGGAGAGCTCAAGTCAAGGCGACATTTGAACGTTAGAGGAAAAAGTGCAACACTACCTTCAATCACTGgtcagaattcagattatgaatcccaatcttgacaatgctctagtgtctatttctttgtgtgccttgagttgcgtgggagggtagttgctcaggattgatgttatggtggtttcctatggacataatattcacattaatttgttgcag

upper sequence: Vv16s0050g02180.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: GLYMA09G23150.1 (Glycine max), 5'ss of exon 4
GGAGATTCAGTGAAATGTGAAGTTGTTGATGGTGGAGAACTCAAGTCTAGAAGGCATCTAAATGTTCGAGGAAAAAGTGCAACACTGCCATCAATTACTGgttggacatggaatga--gtccccaatgtt--------tatagcaaatgctttgttttgcaattcaaaata--------acaatttgctttgatttgctgcag--------------------------------------------
||||| ||||||||||||||||||||||| ||||| |||||||| || | ||| | || ||| |||||||||||||||| ||||| ||||| |||||| || | || | | |||||| || | | | | || || || || | | | ||||| | ||| ||
AAGGATTCTGTGAAATGTGAAGTTGTTGATGGAGGAGAGCTCAAGTCAAGGCGACATTTGAACGTTAGAGGAAAAAGTGCAACTCTGCCTTCAATCACTGgtcagaattcagattattgatcccaatcttgacgatgctctggtgtctatttctttgtgtgcctctagttgtgtgggagggtagttgctcaggattgatgttatggtggcttcctatggacataatattcacattaatttgttgcag

upper sequence: Vv16s0050g02180.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: GLYMA08G24270.1 (Glycine max), 5'ss of exon 4
-----------------------------------GGAGATTCAGTGAAATGTGAAGTTGTTGATGGTGGAGAACTCAAGTCTAGAAGGCATCTAAATGTTCGAGGAAAAAGTGCAACACTGCCATCAATTACTGgttggacatggaatgagtccccaatgtttatagcaaatgctttgttttgcaattcaaaataacaatttgctttgatttgctgcag
||||| |||||||||| |||||||||||| ||||| |||||||| || | | | |||||| |||| |||||||| ||||| || |||||||||| |
ATGGTATGATGTCTATGGTTGTTAAGTCTACGACAAAGGATTCTGTGAAATGTGCAGTTGTTGATGGAGGAGAGCTCAAGTCAAGgtgaattttgaatgttagagggaaaagtgctacactaccttcaattactgagaag--------------------------------------------------------------------------------

upper sequence: Vv16s0050g02180.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: AT5G52920.1 (Arabidopsis thaliana), 5'ss of exon 4
GGAGATTCAGTGAAATGTGAAGTTGTTGATGGTGGAGAACTCAAGTCTAGAAGGCATCTAAATGTTCGAGGAAAAAGTGCAACACTGCCATCAATTACTGgtt-ggacatggaatgagtccccaatgt---ttatagcaaatgctttgttt-------tgcaattcaaaat----aacaatttgctttg------atttgctgcag-----------------
||| || || ||||||||||||||||||||||||||||| ||||| || || || || ||||| |||||||| |||||||| | || ||||| ||||||| | | | | || | | | || | ||||||| || |||| | || | || | || || || |||| || |
AAAGACTCTGTCAAATGTGAAGTTGTTGATGGTGGAGAACTTAAGTCAAGGAGACACCTGAATGTCCGAGGAAAGAGTGCAACTTTACCTTCAATCACTGgttcgaattttctgtttaccctctttttcactttttcttgttgctttggttgaagtgttgcatatttaagtctgaaagatcttactctgatgcttattttttgtaattattttcttgccgcag

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|110688927|gb|EE068039.1|EE068039
EST:     AAGGCATCTAAATGTTCGAGGAAAAAGTGCAACACTGCCATCAATTACTG                         AAAAGGACTGGGATGATATCAAGTTTGGTGTTGACAATAAAGTGGACTTTT
genomic: AAGGCATCTAAATGTTCGAGGAAAAAGTGCAACACTGCCATCAATTACTGgttggacatg ... tttgctgcagAAAAGGACTGGGATGATATCAAGTTTGGTGTTGACAATAAAGTGGACTTTT
EST: gi|110698146|gb|EE075377.1|EE075377
EST:     AAGGCATCTAAATGTTCGAGGAAAAAGTGCAACACTGCCATCAATTACTG                         AAAAGGACTGGGATGATATCAAGTTTGGTGTTGACAATAAAGTGGACTTTT
genomic: AAGGCATCTAAATGTTCGAGGAAAAAGTGCAACACTGCCATCAATTACTGgttggacatg ... tttgctgcagAAAAGGACTGGGATGATATCAAGTTTGGTGTTGACAATAAAGTGGACTTTT