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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtgggttctgttcttgcggttctgtttaaacagtttcaagatatgcatacatttaatcttttttgagaatatttaggaatattcaattaatttgtttggatatggctctgattatcagCTGTCCAGGAAAGTGGTTCAAAATATTCATCTTTCTGGCGGAAGTTTGCTAGGAGTTTCACGTGGGGGACCCAGTGTTGCTGAAATTGTTGATAGTATGG

Basic information

species Vitis vinifera
transcript Vv00s0199g00220.t01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv00s0199g00220.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA01G03040.1 (Glycine max), 3'ss of exon 5
gtaagtgggttctgttcttgcggttctgtttaaacagtttcaagatatgcatacatttaatcttttttgagaatatttaggaatattc-----aattaatttgtttgg-atatggctctgattatcagCTGTCCAGGAAAGTGGTTCAAAATATTCATCTTTCTGGCGGAAGTTTGCTAGGAGTTTCACGTGGGGGACCCAGTGTTGCTGAAATTGTTGATAGTATGG
||||       ||   ||    | |   |||   |    | |  || ||  |  | | ||  | | |||  ||| | | | | | |||     ||| |||   |     || ||| | | |||  |||||||| |||||||||||||| |||||||||||||| || |||||  |  |||||||||||||||| |||||  | ||   ||||||||| || | | || 
gtaatctcacgcttccctccttgctgattttggtctaaat-atcatttgatttaactaaagatatattgcaaatctattgaacttttcttcttaatgaatgcttacaatatttggatttcatttgcagCTGTCAAGGAAAGTGGTTCAGAATATTCATCTTTCAGGTGGAAGCCTATTAGGAGTTTCACGTGGAGGACCTGGAGTCAGTGAAATTGTGGACAATTTGA

upper sequence: Vv00s0199g00220.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA02G04570.1 (Glycine max), 3'ss of exon 6
gtaagtg---ggttctgttcttgcgg--ttctgtttaaacagtttcaagatatgcatacatttaatcttttttgagaatatttaggaatattcaattaatttgtttgg-atatggctctgattatcagCTGTCCAGGAAAGTGGTTCAAAATATTCATCTTTCTGGCGGAA---GTTTGCTAGGAGTTTCACGTGGGGGACCCAGTGTTGCTGAAATTGTTGATAGTATGG
||||      | |||  | ||||| |  || || |  ||   |     ||| |  | |  | || |    | |||  |  |||       || ||| ||| | |     ||  || | | |||  |||||||| |||||||||||||| |||||||||||||| || ||||   |  |  | |||||||||||||| |||||  | ||   ||||||||| || | |    
gtaatctcacgcttccctccttgctgatttttggtcgaaatatcatttgattta-agatctatagttgaatctgatgaacttttcttccttttaatgaatgtttacaatattgggatttcatttgcagCTGTCAAGGAAAGTGGTTCAGAATATTCATCTTTCAGGTGGAAGAAGCCTATTGGGAGTTTCACGTGGAGGACCTGGAGTCAGTGAAATTGTGGACAATT---

upper sequence: Vv00s0199g00220.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA08G38450.1 (Glycine max), 3'ss of exon 5
gtaagtgggttctgttcttgcggttctgtttaaacagtttcaagatatgcatacatttaatcttttttgagaatatttaggaatattcaattaat-ttgtttggatatggctctgattatcagCTGTCCAGGAAAGTGGTTCAAAATATTCATCTTTCTGGCGGAAGTTTGCTAGGAGTTTCACGTGGGGGACCCAGTGTTGCTGAAATTGTTGATAGTATGG
||||     || |   ||    | |   |||          | |||     || |  ||   | | | |   |||  |     |    ||| | | ||   |  ||  |||| | |||  |||||||| || ||||| || || ||||||||||||||||| |||||  || | ||||||||||| || |||||  | ||   ||| ||||   | ||| |||
gtaatctcattttcccctccttgctgattttggtgtaacagatgattcatctaaaggtacaatctgtagcacataagttcttcttcctaatgactcttaaatatattgggctttcatttgcagCTGTCTAGAAAAGTAGTGCAGAATATTCATCTTTCTGGTGGAAGCCTGTTGGGAGTTTCACGAGGAGGACCTGGAGTCAGTGATATTGCGAACAGTCTGG

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|71859409|gb|DT008464.1|DT008464
EST:     GAATTCCTTTTGGCTATCGTGGATTTTCTGAAGAAATAGCTGAAATGCCT                         CTGTCCAGGAAAGTGGTTCAAAATATTCATCTTTCTGGCGGAAGTTTGCTA
genomic: GAATTCCTTTTGGCTATCGTGGATTTTCTGAAGAAATAGCTGAAATGCCTgtaagtgggt ... tgattatcagCTGTCCAGGAAAGTGGTTCAAAATATTCATCTTTCTGGCGGAAGTTTGCTA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgagaatatttaggaatattcaattaatttgtttggatatggctctgattatcagCTGTCCAGGAAAGTGGTTCAAAATATTCATCTTTCTGGCGGAAGTTTGCTAGGAGTTTCACGTGGGGGACCCAGTGTTGCTGAAATTGTTGATAGTATGG
     atatttaggaatattc  TA-rich tract