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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgcaggcttgtcacacctttgctattttataaattgtgagccaattatttggcatcatggcaaattctttatcctgactgtttcatccttttaatgaatctctagATGCAACCCGTGATAATGACTGGACCTGTCCTAAATGTGGAAATGTCAACTTCTCTTTTAGAACTGTTTGTAACATGAGGAAGTGCAATACACCAAAACC

Basic information

species Vitis vinifera
transcript Vv01s0010g03700.t01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv01s0010g03700.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA11G36990.3 (Glycine max), 3'ss of exon 6
gtgcaggcttgtcacacctttgctattttataaattgtgagccaattatttggcatcatggcaaattctttatcctgactgtt-tcatccttttaatgaatctctagATGCAACCCGTGATAATGACTGGACCTGTCCTAAATGTGGAAATGTCAACTTCTCTTTTAGAACTGTTTGTAACATGAGGAAGTGCAATACACCAAAACC
             |||  | || |||||  ||  || ||   | ||| ||||     |||| |  |  | ||   | | | || ||||||  |      | |   ||||||||| ||||| ||||||||||| ||||| |||||||| |||||||| || || || |||||||| || |||||||| |||||||| ||||| |||||
-----------gtacaggtgtgttatttc-tagcttatg--tctatt-tttgttcaaatggaagttgatgtagatttatttttgtcatcccctattcctagc---agATGCAACTCGTGACAATGACTGGACATGTCCAAAATGTGGCAATGTCAATTTTTCATTCAGAACTGTCTGCAACATGAGAAAGTGCAACACACCCAAACC

upper sequence: Vv01s0010g03700.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA11G36990.1 (Glycine max), 3'ss of exon 6
gtgcaggcttgtcacacctttgctattttataaattgtgagccaattatttggcatcatggcaaattctttatcctgactgtt-tcatccttttaatgaatctctagATGCAACCCGTGATAATGACTGGACCTGTCCTAAATGTGGAAATGTCAACTTCTCTTTTAGAACTGTTTGTAACATGAGGAAGTGCAATACACCAAAACC
                  | || |||||  ||  || ||   | ||| ||||     |||| |  |  | ||   | | | || ||||||  |      | |   ||||||||| ||||| ||||||||||| ||||| |||||||| |||||||| || || || |||||||| || |||||||| |||||||| ||||| |||||
-----------------gtgtgttatttc-tagcttatg--tctatt-tttgttcaaatggaagttgatgtagatttatttttgtcatcccctattcctagc---agATGCAACTCGTGACAATGACTGGACATGTCCAAAATGTGGCAATGTCAATTTTTCATTCAGAACTGTCTGCAACATGAGAAAGTGCAACACACCCAAACC

upper sequence: Vv01s0010g03700.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA18G00920.1 (Glycine max), 3'ss of exon 6
gtgcaggcttgtcacacctttgctattttataaattgtgagccaattatttggcatcatggcaaattctttatcctgactgtttcatccttttaatgaatctctagATGCAACCCGTGATAATGACTGGACCTGTCCTAAATGTGGAAATGTCAACTTCTCTTTTAGAACTGTTTGTAACATGAGGAAGTGCAATACACCAAAACC
             |||  |||| |||||  ||  ||  |   |  || ||||     | || |  |  |  |   | | | ||     |   || ||    |  ||||||||| ||||| ||||||||||| ||||| |||||||| |||||||| || || || |||||| | || |||||||| |||||||| ||||| |||||
-----------gtacaggtttgttatttc-tagtttacg--tctgtt-tttgttcaaaaggaagttgatgcagttttatttttctcatcccctattgcgaat--agATGCAACACGTGACAATGACTGGACATGTCCAAAATGTGGCAATGTCAATTTTTCATTCAGAACTATCTGCAACATGAGAAAGTGCAACACACCCAAACC

upper sequence: Vv01s0010g03700.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT1G67325.2 (Arabidopsis thaliana), 3'ss of exon 7
----gtgc-aggcttgtcacacctttgct-attttataaattgtgagccaattatttggcatcatggcaaattctttatcctgactgtttcatcctttta-atgaatctctagATGCAACCCGTGATAATGACTGGACCTGTCCTAAATGTGGAAATGTCAACTTCTCTTTTAGAACTGTTTGTAACATGAGGAAGTGCAATACACCAAAACC
    |||| ||    || |  ||||| |  ||| || ||  ||| |||     |  |||| |       |      ||  |    || |  || || ||   |   | |  |||| |||| || |||||||| ||||| ||||| || ||||| ||||| |||||||| || |||||||| |||||||||||||||||||| || ||||| ||
gtatgtgctagaagagttaggccttttcccattctagaacatgtcagctgtaaagctggcctttattttatagtgatagtcaacttgatatattctgttgtgttcttttacagATTCAACTCGCGATAATGATTGGACATGTCCGAATTGTGGTAATGTAAACTTCTCATTCAGAACTGTATGTAACATGAGGAAGTGCAACACTCCAAAGCC

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|349808005|gb|FQ402396.1|FQ402396
EST:     GGCCCAAGACCAGGNNNNNNNCCTGATGATAAATCTCNNNNNNNNG                         ATGCAACCCGTGATAATGACTGGACCTGTCCTAAATGTGGAAATGTCAACT
genomic: GGCCCAAGACCAGGTTTTTTTCCTGATGATAAATCTCAAAAAAAAGgtgcaggctt ... gaatctctagATGCAACCCGTGATAATGACTGGACCTGTCCTAAATGTGGAAATGTCAACT
EST: gi|349807671|gb|FQ402062.1|FQ402062
EST:     GACCCAAGACCAGGTTTTTGTCCTGATGATAAATCTCNNNNNNNNG                         ATGCACCCCGTGATAATGACTGGACCTGTCCTAAATGT
genomic: GGCCCAAGACCAGGTTTTTTTCCTGATGATAAATCTCAAAAAAAAGgtgcaggctt ... gaatctctagATGCAACCCGTGATAATGACTGGACCTGTCCTAAATGT
EST: gi|349814507|gb|FQ399147.1|FQ399147
EST:     GGCCCAAGACCAGGNNNNNNNCCTGATGATAAATCTCATAAAAAAG                         ATGCAACCCGTGATAATGACTGGACCTGTCCTAAATGTGGAAATGTCAACT
genomic: GGCCCAAGACCAGGTTTTTTTCCTGATGATAAATCTCAAAAAAAAGgtgcaggctt ... gaatctctagATGCAACCCGTGATAATGACTGGACCTGTCCTAAATGTGGAAATGTCAACT
EST: gi|349815268|gb|FQ400423.1|FQ400423
EST:     GGCCCAAGACCAGGNNNNNNNCCTGATGATAAATCTCNNNNNNNNG                         ATGCAACCCGTGATAATGACTGGACCTGTCCTAAATGTGGAAATGTCAACT
genomic: GGCCCAAGACCAGGTTTTTTTCCTGATGATAAATCTCAAAAAAAAGgtgcaggctt ... gaatctctagATGCAACCCGTGATAATGACTGGACCTGTCCTAAATGTGGAAATGTCAACT
EST: gi|110381005|gb|EC946312.1|EC946312
EST:     GGCCCAAGACCAGGNNNNNNNCCTGATGATAAATCTCNNNNNNNNG                         ATGCAACCCGTGATAATGACTGGACCTGTCCTAAATGTGGAAATGTCAACT
genomic: GGCCCAAGACCAGGTTTTTTTCCTGATGATAAATCTCAAAAAAAAGgtgcaggctt ... gaatctctagATGCAACCCGTGATAATGACTGGACCTGTCCTAAATGTGGAAATGTCAACT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggcatcatggcaaattctttatcctgactgtttcatccttttaatgaatctctagATGCAACCCGTGATAATGACTGGACCTGTCCTAAATGTGGAAATGTCAACTTCTCTTTTAGAACTGTTTGTAACATGAGGAAGTGCAATACACCAAAACC
                                                tctct  CT-rich tract
           aaattctttat  TA-rich tract