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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCCATTGAAAAACGAATATCCGTCTATTCTCAAGTTCCAGTTGAAAATGGGGAGCTCATCCAAGTATTGAGgtggggacctaacttatttactggtaaaatacagctcatgaacagggagactaatatgttacagtaacaaggctaacatctgcagaagcacag

Basic information

species Vitis vinifera
transcript Vv05s0062g01220.t01
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv05s0062g01220.t01 (Vitis vinifera), 5'ss of exon 8
lower sequence: GRMZM2G028004_T05 (Zea mays), 5'ss of exon 7
GCCATTGAAAAACGAATATCCGTCTATTCTCAAGTTCCAGTTGAAAATGGGGAGCTCATCCAAGTATTGAGgtggggacctaacttatttactggtaaaatacagctcatgaacagggagactaatatgttacagtaacaaggctaacatctgcagaagcacag
|| || || || |||||||| || |  |||||| | ||    ||||||||||||||||| |||||||||||||    || | |   | |||     | |   ||  ||   |        |||    | ||   || |    |||||| ||  ||   |||   
GCTATAGAGAAGCGAATATCTGTGTTCTCTCAAATACCTAAAGAAAATGGGGAGCTCATTCAAGTATTGAGgt----acttgatgaaatta-----agacagcaattctgtattttttttacttgagtatttttgtga----gctaacttcaacaatggcag--

upper sequence: Vv05s0062g01220.t01 (Vitis vinifera), 5'ss of exon 8
lower sequence: GLYMA10G44480.2 (Glycine max), 5'ss of exon 8
GCCATTGAAAAACGAATATCCGTCTATTCTCAAGTTCCAGTTGAAAATGGGGAGCTCATCCAAGTATTGAGgtggggacctaacttatttactggtaaaatacagctcatgaacagggagactaatatgttacagtaacaaggctaacatctgcagaagcacag
|| ||||||||| |||| || |||||||||||| | ||| |||||||||| ||||| || |||||  ||||||| | |  | ||||||||  |      || |  |   |||||| |  |  |  ||     ||||| |||| ||||||||||||| |||||||
GCAATTGAAAAAAGAATTTCTGTCTATTCTCAAATACCAATTGAAAATGGAGAGCTTATGCAAGTCCTGAGgtgagaatatgacttattttttc-----atgctacatctgaacatgatgggttttac----cagtatcaagactaacatctgcagcagcacag

upper sequence: Vv05s0062g01220.t01 (Vitis vinifera), 5'ss of exon 8
lower sequence: GLYMA10G44480.3 (Glycine max), 5'ss of exon 8
GCCATTGAAAAACGAATATCCGTCTATTCTCAAGTTCCAGTTGAAAATGGGGAGCTCATCCAAGTATTGAGgtggggacctaacttatttactggtaaaatacagctcatgaacagggagactaatatgttacagtaacaaggctaacatctgcagaagcacag
|| ||||||||| |||| || |||||||||||| | ||| |||||||||| ||||| || |||||  ||||||| | |  | ||||||||  |      || |  |   |||||| |  |  |  ||     ||||| |||| ||||||||||||| ||     
GCAATTGAAAAAAGAATTTCTGTCTATTCTCAAATACCAATTGAAAATGGAGAGCTTATGCAAGTCCTGAGgtgagaatatgacttattttttc-----atgctacatctgaacatgatgggttttac----cagtatcaagactaacatctgcagcag-----

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|110427318|gb|EC993753.1|EC993753
EST:     GTCTATTCTCAAGTTCCAGTTGAAAATGGGGAGCTCATCCAAGTATTGAG                         GTATAAAAAGAGTCAGTTCTACAAGCCTCACCATGACTACTTCTCTGATTC
genomic: GTCTATTCTCAAGTTCCAGTTGAAAATGGGGAGCTCATCCAAGTATTGAGgtggggacct ... agaagcacagGTATAAAAAGAGTCAGTTCTACAAGCCTCACCATGACTACTTCTCTGATTC
EST: gi|349820405|gb|FQ406961.1|FQ406961
EST:     GTCTATTCTCAAGTTCCAGTTGAAAATGGGGAGCTCATCCAAGTATTGAG                         GTATAAAAAGAGTCAGTTCTACAAGCCTCACCATGACTACTTCTCTGATTC
genomic: GTCTATTCTCAAGTTCCAGTTGAAAATGGGGAGCTCATCCAAGTATTGAGgtggggacct ... agaagcacagGTATAAAAAGAGTCAGTTCTACAAGCCTCACCATGACTACTTCTCTGATTC
EST: gi|349815347|gb|FQ400502.1|FQ400502
EST:     GTCTATTCTCAAGTTCCAGTTGAAAATGGGGAGCTCATCCAAGTATTGAG                         GTATAAAAAGAGTCAGTTCTACAAGCCTCACCATGACTACTTCTCTGATTC
genomic: GTCTATTCTCAAGTTCCAGTTGAAAATGGGGAGCTCATCCAAGTATTGAGgtggggacct ... agaagcacagGTATAAAAAGAGTCAGTTCTACAAGCCTCACCATGACTACTTCTCTGATTC
EST: gi|351036556|gb|FQ457269.1|FQ457269
EST:     GTCTATTCTCAAGTTCCAGTTGAAAATGGGGAGCTCATCCAAGTATTGAG                         GTATAAAAAGAGTCAGTTCTACAAGCCTCACCATGACTACTTCTCTGATTC
genomic: GTCTATTCTCAAGTTCCAGTTGAAAATGGGGAGCTCATCCAAGTATTGAGgtggggacct ... agaagcacagGTATAAAAAGAGTCAGTTCTACAAGCCTCACCATGACTACTTCTCTGATTC
EST: gi|351046420|gb|FQ453036.1|FQ453036
EST:     GTCTATTCTCAAGTTCCAGTTGAAAATGGGGAGCTCATCCAAGTATTGAG                         GTATAAAAAGAGTCAGTTCTACAAGCCTCACCATGACTACTTCTCTGATTC
genomic: GTCTATTCTCAAGTTCCAGTTGAAAATGGGGAGCTCATCCAAGTATTGAGgtggggacct ... agaagcacagGTATAAAAAGAGTCAGTTCTACAAGCCTCACCATGACTACTTCTCTGATTC
EST: gi|349811155|gb|FQ406107.1|FQ406107
EST:     GTCTATTCTCAAGTTCCAGTTGAAAATGGGGAGCTCATCCAAGTATTGAG                         GTATAAAAAGAGTCAGTTCTACAAGCCTCACCATGACTACTCCTCTGATTC
genomic: GTCTATTCTCAAGTTCCAGTTGAAAATGGGGAGCTCATCCAAGTATTGAGgtggggacct ... agaagcacagGTATAAAAAGAGTCAGTTCTACAAGCCTCACCATGACTACTTCTCTGATTC
EST: gi|351056456|gb|FQ454317.1|FQ454317
EST:     GTCTATTCTCAAGTTCCAGTTGAAAATGGGGAGCTCATCCAAGTATTGAG                         GTATAAAAAGAGTCAGTTCTACAAGCCTCACCATGACTACTTCTCTGATTC
genomic: GTCTATTCTCAAGTTCCAGTTGAAAATGGGGAGCTCATCCAAGTATTGAGgtggggacct ... agaagcacagGTATAAAAAGAGTCAGTTCTACAAGCCTCACCATGACTACTTCTCTGATTC
EST: gi|349821182|gb|FQ408769.1|FQ408769
EST:     GTCTATTCTCAAGTTCCAGTTGAAAATGGGGAGCTCATCCAAGTATTGAG                         GTATAAAAAGAGTCAGTTCTACAAGCCTCACCATGACTACTTCTCTGATTC
genomic: GTCTATTCTCAAGTTCCAGTTGAAAATGGGGAGCTCATCCAAGTATTGAGgtggggacct ... agaagcacagGTATAAAAAGAGTCAGTTCTACAAGCCTCACCATGACTACTTCTCTGATTC
EST: gi|349807356|gb|FQ401348.1|FQ401348
EST:     GTCTATTCTCAAGTTCCAGTTGAAAATGGGGAGCTCATCCAAGTATTGAG                         GTATAAAAAGAGTCAGTTCTACAAGCCTCACCATGACTACTTCTCTGATTC
genomic: GTCTATTCTCAAGTTCCAGTTGAAAATGGGGAGCTCATCCAAGTATTGAGgtggggacct ... agaagcacagGTATAAAAAGAGTCAGTTCTACAAGCCTCACCATGACTACTTCTCTGATTC
EST: gi|351044260|gb|FQ447614.1|FQ447614
EST:     GTCTATTCTCAAGTTCCAGTTGAAAATGGGGAGCTCATCCAAGTATTGAG                         GTATAAAAAGAGTCAGTTCTACAAGCCTCACCATGACTACTTCTCTGATTC
genomic: GTCTATTCTCAAGTTCCAGTTGAAAATGGGGAGCTCATCCAAGTATTGAGgtggggacct ... agaagcacagGTATAAAAAGAGTCAGTTCTACAAGCCTCACCATGACTACTTCTCTGATTC
EST: gi|349817923|gb|FQ407912.1|FQ407912
EST:     GTCTATTCTCAAGTTCCAGTTGAAAATGGGGAGCTCATCCAAGTATTGAG                         GTATAAAAAGAGTCAGTTCTACAAGCCTCACCATGACTACTTCTCTGATTC
genomic: GTCTATTCTCAAGTTCCAGTTGAAAATGGGGAGCTCATCCAAGTATTGAGgtggggacct ... agaagcacagGTATAAAAAGAGTCAGTTCTACAAGCCTCACCATGACTACTTCTCTGATTC
EST: gi|351033401|gb|FQ462052.1|FQ462052
EST:     GTCTATTCTCAAGTTCCAGTTGAAAATGGGGAGCTCATCCAAGTATTGAG                         GTATAAAAAGAGTCAGTTCTACAAGCCTCACCATGACTACTTCTCTGATTC
genomic: GTCTATTCTCAAGTTCCAGTTGAAAATGGGGAGCTCATCCAAGTATTGAGgtggggacct ... agaagcacagGTATAAAAAGAGTCAGTTCTACAAGCCTCACCATGACTACTTCTCTGATTC
EST: gi|349808011|gb|FQ402402.1|FQ402402
EST:     GTCTATTCTCAAGTTCCAGTTGAAAATGGGGAGCTCATCCAAGTATTGAG                         GTGTAAAAAGAGTCAGTTCTACAAGCCTCACCATGACTACTTCTCTGATTC
genomic: GTCTATTCTCAAGTTCCAGTTGAAAATGGGGAGCTCATCCAAGTATTGAGgtggggacct ... agaagcacagGTATAAAAAGAGTCAGTTCTACAAGCCTCACCATGACTACTTCTCTGATTC
EST: gi|351042433|gb|FQ442900.1|FQ442900
EST:     GTCTATTCTCAAGTTCCAGTTGAAAATGGGGAGCTCATCCAAGTATTGAG                         GTATAAAAAGAGTCAGTTCTACAAGCCTCACCATGACTACTTCTCTGATTC
genomic: GTCTATTCTCAAGTTCCAGTTGAAAATGGGGAGCTCATCCAAGTATTGAGgtggggacct ... agaagcacagGTATAAAAAGAGTCAGTTCTACAAGCCTCACCATGACTACTTCTCTGATTC
EST: gi|349811066|gb|FQ406054.1|FQ406054
EST:     TCTATTCTCAAGTTCCAGTTGAAAATGGGGAGCTCATCCAAGGTATTGAG                         GTATAAAAAGAAACAGTTCTACAA-CCTCAACATGACTAC
genomic: TCTATTCTCAAGTTCCAGTTGAAAATGGGGAGCTCATCCAAG-TATTGAGgtggggacct ... agaagcacagGTATAAAAAGAGTCAGTTCTACAAGCCTCACCATGACTAC
EST: gi|351037271|gb|FQ457104.1|FQ457104
EST:     GTCTATTCTCAAGTTCCAGTTGAAAATGGGGAGCTCATCCAAGTATTGAG                         GTATAAAAAGAGTCAGTTCTACAAGCCTCACCATGACTACTTCTCTGATTC
genomic: GTCTATTCTCAAGTTCCAGTTGAAAATGGGGAGCTCATCCAAGTATTGAGgtggggacct ... agaagcacagGTATAAAAAGAGTCAGTTCTACAAGCCTCACCATGACTACTTCTCTGATTC
EST: gi|349824801|gb|FQ414659.1|FQ414659
EST:     GTCTATTCTCAAGTTCCAGTTGAAAATGGGGAGCTCATCCAAGTATTGAG                         GTATAAAAAGAGTCAGTTCTACAAGCCTCACCATGACTACTTCTCTGATTC
genomic: GTCTATTCTCAAGTTCCAGTTGAAAATGGGGAGCTCATCCAAGTATTGAGgtggggacct ... agaagcacagGTATAAAAAGAGTCAGTTCTACAAGCCTCACCATGACTACTTCTCTGATTC
EST: gi|351032228|gb|FQ460485.1|FQ460485
EST:     GTCTGTTCTCAAGTTCCAGTTGAAAATGGGGAGCTCATCCAAGTATTGAG                         GTATAAAAAGAGTCAGTTCTACAAGCCTCACCATGACTACTTCTCTGATTC
genomic: GTCTATTCTCAAGTTCCAGTTGAAAATGGGGAGCTCATCCAAGTATTGAGgtggggacct ... agaagcacagGTATAAAAAGAGTCAGTTCTACAAGCCTCACCATGACTACTTCTCTGATTC
EST: gi|351049572|gb|FQ429194.1|FQ429194
EST:     GTCTATTCTCAAGTTCCAGTTGAAAATGGGGAGCTCATCCAAGTATTGAG                         GTATAAAAAGAGTCAGTTCTACAAGCCTCACCATGACTACTTCTCTGATTC
genomic: GTCTATTCTCAAGTTCCAGTTGAAAATGGGGAGCTCATCCAAGTATTGAGgtggggacct ... agaagcacagGTATAAAAAGAGTCAGTTCTACAAGCCTCACCATGACTACTTCTCTGATTC
EST: gi|351052197|gb|FQ450767.1|FQ450767
EST:     GTCTATTCTCAAGTTCCAGTTGAAAATGGGGAGCTCATCCAAGTATTGAG                         GTATAAAAAGAGTCAGTTCTACAAGCCTCACCATGACTACTTCTCTGATTC
genomic: GTCTATTCTCAAGTTCCAGTTGAAAATGGGGAGCTCATCCAAGTATTGAGgtggggacct ... agaagcacagGTATAAAAAGAGTCAGTTCTACAAGCCTCACCATGACTACTTCTCTGATTC
EST: gi|351055664|gb|FQ452129.1|FQ452129
EST:     GTCTATTCTCAAGTTCCAGTTGAAAATGGGGAGCTCATCCAAGTATTGAG                         GTATAAAAAGAGTCAGTTCTACAAGCCTCACCATGACTACTTCTCTGATTC
genomic: GTCTATTCTCAAGTTCCAGTTGAAAATGGGGAGCTCATCCAAGTATTGAGgtggggacct ... agaagcacagGTATAAAAAGAGTCAGTTCTACAAGCCTCACCATGACTACTTCTCTGATTC

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCCATTGAAAAACGAATATCCGTCTATTCTCAAGTTCCAGTTGAAAATGGGGAGCTCATCCAAGTATTGAGgtggggacctaacttatttactggtaaaatacagctcatgaacagggagactaatatgttacagtaacaaggctaacatctgcagaagcacag

- - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA