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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TACAGAACGGTATATTTCTGGTCAGAAAGCTGATGCAGCAGGATTTGTACGCCTCTTGCTTGATGATCTGGAGTCAAGAATTTCTATGCAGTTCGGCCGTgtaagtttttgtctttgagctgaaacaatatatggctatttttgttctccaggttgtgatatttaccagtctaagcaatgaattatgttgcag

Basic information

species Vitis vinifera
transcript Vv18s0001g11700.t01
intron # 17
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv18s0001g11700.t01 (Vitis vinifera), 5'ss of exon 17
lower sequence: LOC_Os03g42750.1 (Oryza sativa), 5'ss of exon 17
TACAGAACGGTATATTTCTGGTCAGAAAGCTGATGCAGCAGGATTTGTACGCCTCTTGCTTGATGATCTGGAGTCAAGAATTTCTATGCAGTTCGGCCGTgtaagt-ttttgtctttgagctgaaacaatatatggctatttttgttctccaggttgtgatatttaccagtctaagcaatgaatt----atgttgcag------
||||||||| ||  | || ||||||||||||||||| ||||||||||| |||    | ||| ||||  ||||||||||||| || |  |||||| || | || |||    |   ||   | ||      |||||   ||| | |||     || |    |   |  | | ||| |  ||||   |    || || ||       
TACAGAACGATACCTGTCCGGTCAGAAAGCTGATGCTGCAGGATTTGTTCGCAGACTACTTCATGACTTGGAGTCAAGAATATCAACACAGTTCAGCAGGgttagtgccctcagttcaggatgtgctgctatatta-tatctatgtagaagagatccatagtctatctactctcattaatgtcgtcttaattttccatttccag

upper sequence: Vv18s0001g11700.t01 (Vitis vinifera), 5'ss of exon 17
lower sequence: GRMZM2G099056_T01 (Zea mays), 5'ss of exon 17
TACAGAACGGTATATTTCTGGTCAGAAAGCTGATGCAGCAGGATTTGTACGCCTCTTGCTTGATGATCTGGAGTCAAGAATTTCTATGCAGTTCGGCCGTgtaagtttttgtctttgagctgaaacaat---atatggctatttttgttctccaggttgt--gatatttaccagtctaagcaatgaattatgttgcag------
|||||| || ||  ||||||| |||||||||||||| ||||||||||| |||    | ||||||||  |||| |||||||| ||  | |||||| |||| || ||||    |  ||||||  || |       | || |||||  |      | | || |  |     | |  ||  |     | | || |  |          
TACAGAGCGTTACCTTTCTGGACAGAAAGCTGATGCTGCAGGATTTGTTCGCAAACTACTTGATGACTTGGAATCAAGAATATCAGTACAGTTCAGCCGGgttagttccc-ttgttgagcctaagctgctcggtgtgactattcattacgggctgattttctgtccactgcttgttcagatctttatttcttctctcttttcag

upper sequence: Vv18s0001g11700.t01 (Vitis vinifera), 5'ss of exon 17
lower sequence: GLYMA04G03710.1 (Glycine max), 5'ss of exon 17
TACAGAACGGTATATTTCTGGTCAGAAAGCTGATGCAGCAGGATTTGTACGCCTCTTGCTTGATGATCTGGAGTCAAGAATTTCTATGCAGTTCGGCCGTgtaagtttttgtctttgagctgaaacaatatatggctatttttgttctccaggttgtgatatttacc-agtctaagcaatgaattatgttgcag---
||||||||| ||| | |||||||||||||||||||||||||||||||||||| | ||||||| |||||| |||||  | || |||||||||||| |||||||| ||   |   |||      ||| |||      | | ||   ||    || ||| |||  | ||| | |  |   |||    ||| ||       
TACAGAACGCTATCTCTCTGGTCAGAAAGCTGATGCAGCAGGATTTGTACGCATTTTGCTTGGTGATCTAGAGTCTCGCATATCTATGCAGTTCAGCCGTgtatgtgactagttttat----aaataattc----ccacttgcatttagaagattgagatgctaacccaattcatataattggatatcttttttcag

upper sequence: Vv18s0001g11700.t01 (Vitis vinifera), 5'ss of exon 17
lower sequence: GLYMA09G18840.1 (Glycine max), 5'ss of exon 17
TACAGAACGGTATATTTCTGGTCAGAAAGCTGATGCAGCAGGATTTGTACGCCTCTTGCTTGATGATCTGGAGTCAAGAATTTCTATGCAGTTCGGCCGTgtaagtttttgtctttgagctgaa-acaatatatggctatttttgttct-ccaggttgtgatatttaccagtctaagcaatgaattatgttgcag
 |||||||| ||| | |||||||||||||||||||||||||||||||||||    ||||||  ||| ||||||||  | || ||||||||||||  ||| ||| ||   |  |     |  ||| ||| | |     |   ||||          |||  |   | |    | | |      |||  | ||||||
AACAGAACGCTATCTCTCTGGTCAGAAAGCTGATGCAGCAGGATTTGTACGTGATTTGCTTCGTGACCTGGAGTCTCGGATATCTATGCAGTTCAACCGAgtaggtgactagcaccatgaagaagacattttgccaatgcatttggaaaattgaattgctaacctgattcattttattgg-aaatctttttgcag

upper sequence: Vv18s0001g11700.t01 (Vitis vinifera), 5'ss of exon 17
lower sequence: GLYMA17G36540.1 (Glycine max), 5'ss of exon 17
TACAGAACGGTATATTTCTGGTCAGAAAGCTGATGCAGCAGGATTTGTACGCCTCTTGCTTGATGATCTGGAGTCAAGAATTTCTATGCAGTTCGGCCGTgtaagtttttgtctttgagctgaaacaatatatggctatttttgttctccaggttgtgatatttaccagtctaagcaatgaattatgttgcag
 |||||||| ||| | |||||||||||||||||||||||||||||||||||    ||||||  ||| ||||||||  | || ||||||||||||  ||| ||| ||   |  |     |  |||  | |   |      ||| |         |||  |   | |    | |||      |||  | ||||||
AACAGAACGCTATCTCTCTGGTCAGAAAGCTGATGCAGCAGGATTTGTACGTGATTTGCTTCGTGACCTGGAGTCTCGGATATCTATGCAGTTCAACCGAgtaggtgactagcaccatgaagaag-actccttaatgcgtttggaaaattgaattgctaacctgattcatataattgg-aaatctttttgcag

upper sequence: Vv18s0001g11700.t01 (Vitis vinifera), 5'ss of exon 17
lower sequence: AT1G47550.1 (Arabidopsis thaliana), 5'ss of exon 17
TACAGAACGGTATATTTCTGGTCAGAAAGCTGATGCAGCAGGATTTGTACGCCTCTTGCTTGATGATCTGGAGTCAAGAATTTCTATGCAGTTCGGCCGTgtaagtttttgtctttgagctgaaacaatatatggctatttttgttctccaggttgtgatatttaccagtctaagcaa--tgaattatgttgcag
 || ||||| ||| | |||||||||||||||||||| ||||||||||| ||||| |||||||  ||||||||||| ||| |||||||||| ||| ||||||||    |  ||||     || ||| | | | | |   ||||||||| |  |  |   ||   ||| | || |  |||  ||| ||    |||||
AACTGAACGTTATCTATCTGGTCAGAAAGCTGATGCTGCAGGATTTGTTCGCCTTTTGCTTGGAGATCTGGAGTCGAGAGTTTCTATGCAATTCAGCCGTgtag---tccgtct----actcaaagattgtttag---tttttgttc-ctggcataccattcctactaatcaattcaagttgactttaactgcag

upper sequence: Vv18s0001g11700.t01 (Vitis vinifera), 5'ss of exon 17
lower sequence: AT1G47560.1 (Arabidopsis thaliana), 5'ss of exon 17
TACAGAACGGTATATTTCTGGTCAGAAAGCTGATGCAGCAGGATTTGTACGCCTCTTGCTTGATGATCTGGAGTCAAGAATTTCTATGCAGTTCGGCCGTgtaagtttttgtctttgagctgaaacaatatatggctatttttgttctccaggttgtgatatttaccagtctaagcaa--tgaattatgttgcag
 || ||||| ||| | |||||||||||||||||||| ||||||||||| ||||| |||||||  ||||||||||| |||||||||||||| ||| ||| ||||    |  ||||     || | | | | | | |   ||||||||| |  |  |   ||   ||| | || |  |||  ||| ||    |||||
AACCGAACGTTATCTATCTGGTCAGAAAGCTGATGCTGCAGGATTTGTTCGCCTTTTGCTTGGAGATCTGGAGTCGAGAATTTCTATGCAATTCAGCCATgtag---tccgtct----actcagagattgtttag---tttttgttc-ctggcataccattcctactaatcaattcaagttgactttaactgcag

upper sequence: Vv18s0001g11700.t01 (Vitis vinifera), 5'ss of exon 17
lower sequence: AT1G47550.2 (Arabidopsis thaliana), 5'ss of exon 17
TACAGAACGGTATATTTCTGGTCAGAAAGCTGATGCAGCAGGATTTGTACGCCTCTTGCTTGATGATCTGGAGTCAAGAATTTCTATGCAGTTCGGCCGTgtaagtttttgtctttgagctgaaacaatatatggctatttttgttctccaggttgtgatatttaccagtctaagcaa--tgaattatgttgcag
    ||||| ||| | |||||||||||||||||||| ||||||||||| ||||| |||||||  ||||||||||| ||| |||||||||| ||| ||||||||    |  ||||     || ||| | | | | |   ||||||||| |  |  |   ||   ||| | || |  |||  ||| ||    |||||
---TGAACGTTATCTATCTGGTCAGAAAGCTGATGCTGCAGGATTTGTTCGCCTTTTGCTTGGAGATCTGGAGTCGAGAGTTTCTATGCAATTCAGCCGTGTAg---tccgtct----actcaaagattgtttag---tttttgttc-ctggcataccattcctactaatcaattcaagttgactttaactgcag

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|7593728|gb|AW707979.1|AW707979
EST:     GCCTCTTGCTTGATGATCTGGAGTCAAGAATTTCTATGCAGTTCGGCCGT                         TTTGTTGATGAAGCTTGTCACCAGATTGAAAGAAATGAACGTAACGTTCGG
genomic: GCCTCTTGCTTGATGATCTGGAGTCAAGAATTTCTATGCAGTTCGGCCGTgtaagttttt ... tatgttgcagTTTGTTGATGAAGCTTGTCACCAGATTGAAAGAAATGAACGTAACGTTCGG