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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagaagcttatcatccatttatccatgttctttatataacaacgaactctcatctccaattttcttcctcagGAATTTGTTTCTAGCCAAAATAGACCAAAGGCAACTCGTGTAACCCGGGTTATTCAAGGGTATGAGACACATTCATTCAAGTCCAACTTTGATTCTTGGC

Basic information

species Vitis vinifera
transcript Vv08s0007g08690.t01
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv08s0007g08690.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os03g24220.1 (Oryza sativa), 3'ss of exon 8
-------gtagaagcttatcatccatttatccatgttctttatataacaacgaactctcatctccaattttcttcctcagGAATTTGTTTCTAGCCAAAATAGACCAAAGGCAACTCGTGTAACCCGGGTTATTCAAGGGTATGAGACACATTCATTCAAGTCCAACTTTGATTCTTGGC
         |     || |  ||   || |   | |  |   |||   ||     |   ||||  ||||| | |    |||||||  || |||  |||||||| |||||| ||||  | |||||||| || ||||||||||| ||||  ||| |||||||||| || ||||| || ||||
gtaagtctcaagccattgttttcttcttttttttttcttgcctattcaaatttgttaggatcta-aatttgcctttgtagGAATTCATTGCTACTCAAAATAGGCCAAAGACAACAAGAGTAACCCGAGTGATTCAAGGGTACGAGAATCATACATTCAAGTCTAAGTTTGAATCATGGC

upper sequence: Vv08s0007g08690.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA10G21350.2 (Glycine max), 3'ss of exon 7
-----------gtagaagcttatcatcca-tttatccatgttctttatataacaacgaactctcatctccaattttcttcctcagGAATTTGTTTCTAGCCAAAATAGACCAAAGGCAACTCGTGTAACCCGGGTTATTCAAGGGTATGAGACACATTCATTCAAGTCCAACTTTGATTCTTGGC
           |||||| || || ||| | || ||     ||  || | | | |  | | ||     | | |       |  ||||| |||||| | ||||||||||| |||||| | ||  |  |||||||| |||||||||| |||||| |||||||||| ||||||||||||||||||||||
gtaaggccattgtagaatct-ataatctaattcatttccatttgtt-tgttaaattggattcattaattctaccaatacctccagGAGTTTGTTGCAAGCCAAAATAGGCCAAAGTCTACAAGGATAACCCGGATTATTCAAGGTTATGAGCCACATTCATTTAAGTCCAACTTTGATTCTTGGC

upper sequence: Vv08s0007g08690.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA02G32100.1 (Glycine max), 3'ss of exon 6
-----------gtagaagct----tatcatccatttatccatgttctttatataacaacgaactctcatctccaattttcttcctcagGAATTTGTTTCTAGCCAAAATAGACCAAAGGCAACTCGTGTAACCCGGGTTATTCAAGGGTATGAGACACATTCATTCAAGTCCAACTTTGATTCTTGGC
            ||||| ||    | | || | |   ||    ||  |||  ||| |  | | ||     | | |      ||  ||||| |||||| |||| |||||||| |||||| | ||  |  |||||||| |||||||||| |||||||| |||||||| ||||||||||||||||||||||
gtaatgctattctagaatctagaatctaattcttacttctccatttgttagttaa-agtggattcattaattctacaaatatctccagGAGTTTGTTGCTAGTCAAAATAGGCCAAAGTCTACAAGGATAACCCGGATTATTCAAGGTTATGAGACGCATTCATTTAAGTCCAACTTTGATTCTTGGC

upper sequence: Vv08s0007g08690.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA03G29280.1 (Glycine max), 3'ss of exon 7
gtagaagcttatcatccatttatccatgttctttatataacaac--gaactctcatctccaattttctt-----cctcagGAATTTGTTTCTAGCCAAAATAGACCAAAGGCAACTCGTGTAACCCGGGTTATTCAAGGGTATGAGACACATTCATTCAAGTCCAACTTTGATTCTTGGC
    ||   |||      ||   |||| ||||| ||||        ||| |    ||   ||| ||  |       |||||| ||| |  | || ||||| || || ||  | ||  |  | ||| |  |||||||||| |||||||||||||| || ||||||||||||||||||||||
--gtaatgctattgcaagttccaccat-ttcttcatatgttggtttgaagtgaagtcattaatgttactaatatgttcagGAGTTTCTCACAAGTCAAAAAAGGCCGAAATCTACAAGGATTACCAGAATTATTCAAGGTTATGAGACACATTCGTTTAAGTCCAACTTTGATTCTTGGC

upper sequence: Vv08s0007g08690.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA19G32010.1 (Glycine max), 3'ss of exon 8
---gtagaagcttatcatccatttatccatgttctttatataacaacgaactctcatctccaattttcttcctcagGAATTTGTTTCTAGCCAAAATAGACCAAAGGCAACTCGTGTAACCCGGGTTATTCAAGGGTATGAGACACATTCATTCAAGTCCAACTTTGATTCTTGGC
    |  ||    |   ||||||| | ||| | ||   | | | |  | | ||     |   | |    |  |||||| |||||  | || ||||| || || ||  | ||  |  | ||| |  | |||||||| |||||||||||||| || |||||||||||||||| |||||
gtaatgcaattgcaagttccatttcttcatatgctg-gtttga-agtggagtcattaatgttactgatatgttcagGAGTTTGTCGCAAGTCAAAAAAGGCCGAAATCTACAAGGATTACCAGAATCATTCAAGGTTATGAGACACATTCTTTTAAGTCCAACTTTGATTTTTGGC

upper sequence: Vv08s0007g08690.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT3G57410.1 (Arabidopsis thaliana), 3'ss of exon 9
------gtagaagcttatcatccatttatccatgttctttatataacaacgaactctcatctccaattttcttcctcagGAATTTGTTTCTAGCCAAAATAGACCAAAGGCAACTCGTGTAACCCGGGTTATTCAAGGGTATGAGACACATTCATTCAAGTCCAACTTTGATTCTTGGC
       ||||| | | | |     ||| || |    |  || | |  |     |||||| |  |   ||| ||  ||||| |||||| ||||  ||||||| ||||||||||| ||  ||||||| ||||||||||| |||||| | ||||| |||||||| |||||||| |||||||
gtaaagctagaatcgtctaacttgcttagccttagaat--atctgaggattggttctcattttta-ccttcctctacagGATTTTGTTGCTAGTGAAAATAGGCCAAAGGCAACACGCATAACCCGTGTTATTCAAGGTTATGAGCCCCATTCTTTCAAGTCTAACTTTGACTCTTGGC

upper sequence: Vv08s0007g08690.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT2G41740.1 (Arabidopsis thaliana), 3'ss of exon 8
-------gtagaagcttatcatccatttatccatgttctttata----------taacaacgaactctca-tctccaattttcttcctcagGAATTTGTTTCTAGCCAAAATAGACCAAAGGCAACTCGTGTAACCCGGGTTATTCAAGGGTATGAGACACATTCATTCAAGTCCAACTTTGATTCTTGGC
        | |||   ||| |   |  | ||   | || ||| |           ||  | |   ||||| | |  |  |||| ||  ||||||||  || ||||  ||||||| ||||||||||| | |||||| || || || ||||| |||||| | ||||| |||||||| |||||||| |||||||
gtaaagaatggaaatctattaaaaacatttctccggtccttagaatatctatctcaatcatggcttctcactttttacctttcatctacagGAATTCCTTGCTAGTGAAAATAGGCCAAAGGCAACACATGTAACTCGTGTAATCCAAGGTTATGAGTCCCATTCTTTCAAGTCTAACTTTGACTCTTGGC

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|30133877|gb|CB919216.1|CB919216
EST:     GCCAGCCAAGCTGCTGAG                         GAATTTGTTTCTAGCCAAAATAGACCAAAGGCAACTCGTGTAACCCGGGTT
genomic: GCCAGCCAAGCTGCTGAGgtagaagctt ... tcttcctcagGAATTTGTTTCTAGCCAAAATAGACCAAAGGCAACTCGTGTAACCCGGGTT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttatccatgttctttatataacaacgaactctcatctccaattttcttcctcagGAATTTGTTTCTAGCCAAAATAGACCAAAGGCAACTCGTGTAACCCGGGTTATTCAAGGGTATGAGACACATTCATTCAAGTCCAACTTTGATTCTTGGC
                atataac  putative branch site (score: 3)
                             ctctcatctccaattt  putative PPT
       atgttctttatataa  TA-rich tract