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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATTCAGTACTGCTCAGAAATTAGACAAACTTGGGATGCGAGGAAGTGACACgtaagcctcattactacagcatgctcccccttttttctctcttttctgaaactggagaggatatgataattttcattaacaaaattgcag

Basic information

species Vitis vinifera
transcript Vv06s0004g03140.t01
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv06s0004g03140.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: LOC_Os05g03480.4 (Oryza sativa), 5'ss of exon 8
ATTCAGTACTGCTCAGAAATTAGACAAACTTGGGATGCGAGGAAGTGACACgtaagcctcattactac-agcatgctcccccttttttctctcttttctgaaactggagaggatatgataattttcattaacaaaattgcag
 ||||||||||| ||||| || ||||| ||||| ||| |||||||||||||||| |  |  |   ||  || ||   |       || |  |   || || |   |    | || | | |  | |  || ||| |       
GTTCAGTACTGCACAGAAGTTGGACAAGCTTGGCATGAGAGGAAGTGACACgtatgttttctatttaagaggataaccaaaagagttgcattagattttgcattagattcgtatcttacatatatttttgacacag------

upper sequence: Vv06s0004g03140.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: GRMZM2G052630_T02 (Zea mays), 5'ss of exon 7
ATTCAGTACTGCTCAGAAATTAGACAAACTTGGGATGCGAGGAAGTGACACgtaagcctcattactacagcatgctcccccttttttctctcttttctgaaactggagaggatatgataattttcattaacaaaattgcag
 |||||||||||||||||||| ||||||||||| ||| ||||||| |||||||| |     || ||||    |  |    ||| |         |  |||||  || |   || | |     | |||   | ||  |||||
GTTCAGTACTGCTCAGAAATTGGACAAACTTGGCATGAGAGGAAGCGACACgtatgat--gtttctacttgctcatgaaacttatgaaaagaaatggtgaaatcggggccaatttaac----tccat---ctaatctgcag

upper sequence: Vv06s0004g03140.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: GRMZM2G052630_T03 (Zea mays), 5'ss of exon 5
-------------------------------------------------ATTCAGTACTGCTCAGAAATTAGACAAACTTGGGATGCGAGGAAGTGACACgtaagcctcattactacagcatgctcccccttttttctctcttttctgaaactggagaggatatgataattttcattaacaaaattgcag
                                                  |||||||||||||||||||| ||||||||||| ||| ||||||| |||||||| |     || ||||    |  |    ||| |         |  |||||  || |   || | |     | |||   | ||  |||||
TCTACAGCTTTCTGGTCATGTTACTGATGGTCCTTGTTCACGACTACAGGTTCAGTACTGCTCAGAAATTGGACAAACTTGGCATGAGAGGAAGCGACACgtatgat--gtttctacttgctcatgaaacttatgaaaagaaatggtgaaatcggggccaatttaac----tccat---ctaatctgcag

upper sequence: Vv06s0004g03140.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: GRMZM2G381051_T01 (Zea mays), 5'ss of exon 7
ATTCAGTACTGCTCAGAAATTAGACAAACTTGGGATGCGAGGAAGTGACACgtaagcctcattactacagcatgctcccccttttttctctcttttctgaaactggagaggatatgataattttcatt--aacaaaattgcag
 ||||||||||||||||| || ||||||||||| ||| ||||||| |||||||| |                || | |  ||| ||        || |  ||  || ||    | |   | ||| | |  | | ||  |||||
GTTCAGTACTGCTCAGAAGTTGGACAAACTTGGCATGAGAGGAAGCGACACgtatg---------------gtgtttctacttgttcaggataattatacaagcggtgaactcaggcccaatttaactccatctaatctgcag

upper sequence: Vv06s0004g03140.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: GLYMA12G07570.1 (Glycine max), 5'ss of exon 9
ATTCAGTACTGCTCAGAAATTAGACAAACTTGGGATGCGAGGAAGTGACACgtaagcctcattactacagcatgctcccccttttttctctcttttctgaaactggagaggatatgataattttcattaacaaaattgcag-----------
||||| |||||| |||||||| || ||||||||||||||||||||||| ||||| |  |   |  | | |   |      || |||    ||  |||  || |         |    | | ||| | | | ||||| | |            
ATTCAATACTGCCCAGAAATTGGATAAACTTGGGATGCGAGGAAGTGATACgtatgtatgcatgtt-ctgtgagaaatttctatttataatccattcctaacc------actttccctcactttaactgataaaatggaattctgcgggcag

upper sequence: Vv06s0004g03140.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: GLYMA11G15900.1 (Glycine max), 5'ss of exon 9
ATTCAGTACTGCTCAGAAATTAGACAAACTTGGGATGCGAGGAAGTGACACgtaagcct-cattactacagcatgctcccccttttttctctcttttctgaaactggagaggatatgataattttcattaacaaaattgcag-----------
||||| |||||| |||||||| || ||||||||||||||||||||||| ||||| |  | |||   | | |   |      || | |    ||  |||  || |         |    | | ||| | | ||||||| | |            
ATTCAATACTGCCCAGAAATTGGATAAACTTGGGATGCGAGGAAGTGATACgtatgtatgcatatgttctgtgagaaatttctatatataatccattcctaatc------actttccctcactttaactgacaaaatgggattctgcgggcag

upper sequence: Vv06s0004g03140.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: AT3G45300.1 (Arabidopsis thaliana), 5'ss of exon 9
ATTCAGTACTGCTCAGAAATTAGACAAACTTGGGATGCGAGGAAGTGACACgtaagcctcattactacagcatg-------ctcccccttttttctctcttttctgaaactggagaggatatgataattttcattaacaaaattgcag
||||||||||||||||||||| |||||||| || ||||| ||||| || |||||| || ||||    ||  ||        ||       ||   || |||||                | | | |  | ||  |    |    ||||
ATTCAGTACTGCTCAGAAATTGGACAAACTAGGAATGCGGGGAAGCGATACgtaatccccattctctcaagataaaaatatctgtgtaaattaaatccctttttcactgtctctttctctctaacatctgtctctcctga----gcag

upper sequence: Vv06s0004g03140.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: PP1S242_101V6.2 (Physcomitrella patens), 5'ss of exon 11
ATTCAGTACTGCTCAGAAATTAGACAAACTTGGGATGCGAGGAAGTGACACgtaagcctcattactac---agcatgctccc--ccttttttctctcttttctgaaactggagaggatat-----gataattttcattaacaaaattgcag------------------------------------
 || ||||||||||||||| ||||||| ||||||||||| || ||||| |||| ||     || |  |   | | | |||    | ||   |        ||||||  | |        |     || || |||   |  ||   |  |                                      
GTTTAGTACTGCTCAGAAACTAGACAAGCTTGGGATGCGGGGCAGTGATACgtgagttctttttcacccttaacttactcatgacattgggtagagtccgtctgaatttagttgtttcttacgtggaaaacttttgcttccatgctaccgatgtataatctctgattgaatttgatgtttctggcag

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|352772844|gb|FQ470459.1|FQ470459
EST:     TTCAGTACTGCTCAGAAATTAGACAAACTTGGGATGCGAGGAAGTGACAC                         GTGTGAGCTTGTCTTTGAGAATTGCTTTGTTCCAGAAGAAAATGTTCTTGG
genomic: TTCAGTACTGCTCAGAAATTAGACAAACTTGGGATGCGAGGAAGTGACACgtaagcctca ... aaaattgcagGTGTGAGCTTGTCTTTGAGAATTGCTTTGTTCCAGAAGAAAATGTTCTTGG
EST: gi|352764155|gb|FQ467725.1|FQ467725
EST:     TTCAGTACTGCTCAGAAATTAGACAAACTTGGGATGCGAGGAAGTGACAC                         GTGTGAGCTTGTCTTTGAGAATTGCTTTGTTCCAGAAGAAAATGTTCTTGG
genomic: TTCAGTACTGCTCAGAAATTAGACAAACTTGGGATGCGAGGAAGTGACACgtaagcctca ... aaaattgcagGTGTGAGCTTGTCTTTGAGAATTGCTTTGTTCCAGAAGAAAATGTTCTTGG
EST: gi|32247850|gb|CD713669.1|CD713669
EST:     TTCAGTACTGCTCAGAAATTAGACAAACTTGGGATGCGAGGAAGTGACAC                         GTGTGAGCTTGTCTTTGAGAATTGCTTTGTTCCAGAAGAAAATGTTCTTGG
genomic: TTCAGTACTGCTCAGAAATTAGACAAACTTGGGATGCGAGGAAGTGACACgtaagcctca ... aaaattgcagGTGTGAGCTTGTCTTTGAGAATTGCTTTGTTCCAGAAGAAAATGTTCTTGG
EST: gi|32271070|gb|CD720229.1|CD720229
EST:     TTCAGTACTGCTCAGAAATTAGACAAACTTGGGATGCGAGGAAGTGACAC                         GTGTGAGCTTGTCTTTGAGAATTGCTTTGTTCCAGAAGAAAATGTTCTTGG
genomic: TTCAGTACTGCTCAGAAATTAGACAAACTTGGGATGCGAGGAAGTGACACgtaagcctca ... aaaattgcagGTGTGAGCTTGTCTTTGAGAATTGCTTTGTTCCAGAAGAAAATGTTCTTGG
EST: gi|30322661|gb|CD005923.1|CD005923
EST:     TTCAGTACTGCTCAGAAATTAGACAAACTTGGGATGCGAGGAAGTGACAC                         GTGTGAGCTTGTCTTTGAGAATTGCTTTGTTCCAGAAGAAAATGTTCTTGG
genomic: TTCAGTACTGCTCAGAAATTAGACAAACTTGGGATGCGAGGAAGTGACACgtaagcctca ... aaaattgcagGTGTGAGCTTGTCTTTGAGAATTGCTTTGTTCCAGAAGAAAATGTTCTTGG