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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AACTTTAAAGGAAAAAATGAAGGAGTACAATAAGAAAGAGGCCAAATTCTATGGCAACATGTTTGCAAGGATGAACAAGTTAGAGGCACTCGAGACCAATgtaagtttctaatctatgcattcttgatttgttattatattgcatataagaacagtggtgcattgttagaaggataaaaaattgggtagtaagaaaataaaaataaaattagcaactcaaacattgatatgtatgaacattttcattaatgaatggccctaatggggttttgtgtttgtgatatgcag

Basic information

species Vitis vinifera
transcript Vv00s0769g00010.t01
intron # 12
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv00s0769g00010.t01 (Vitis vinifera), 5'ss of exon 12
lower sequence: GLYMA16G10730.1 (Glycine max), 5'ss of exon 12
AACTTTAAAGGAAAAAATGAAGGAGTACAATAAGAAAGAGGCCAAATTCTATGGCAACATGTTTGCAAGGATGAACAAGTTAGAGGCACTCGAGACCAATgtaagtttctaatctatgcattcttgatttgttattatattgcatataagaacagtggtgcattgttagaaggataaaaaattgggtagtaagaaaataaaaataaaattagcaactcaaacattgatatgtatgaacattttcattaatgaatggccctaatggggttttgtgtttgtgatatgcag
 ||| | |||||||| |||||||||||||| ||||||||||| ||||| ||||| || |||||    |   || ||||| ||||  | || || |  | ||| ||| |    ||| |  | |      |  |      | |  ||   | || |||      ||| |   | |    || |||    | |   ||   | || |                                                                                    
GACTCTGAAGGAAAAGATGAAGGAGTACAACAAGAAAGAGGCAAAATTTTATGGAAATATGTTCAACAAACTGCACAAGCTAGATTCTCTTGACAATAGTgtgagtattccgtctctataatt---gctcataccagaagtcaatgcga-aatagtcaaattttgatctcaagcatgaatattccccattcgaaatgaagaagt------------------------------------------------------------------------------------

upper sequence: Vv00s0769g00010.t01 (Vitis vinifera), 5'ss of exon 12
lower sequence: GLYMA03G21690.1 (Glycine max), 5'ss of exon 12
AACTTTAAAGGAAAAAATGAAGGAGTACAATAAGAAAGAGGCCAAATTCTATGGCAACATGTTTGCAAGGATGAACAAGTTAGAGGCACTCGAGACCAATgtaagtttctaatctatgcattcttgatttgttattatattgcatataagaacagtggtgcattgttagaaggataaaaaattgggtagtaagaaaataaaaataaaattagcaactcaaacattgatatgtatgaacattttcattaatgaatggccctaatggggttttgtgtttgtgatatgcag
 ||||| |||||||| |||||||||||||| || |||||||| ||||| ||||| || |||||    |   || ||||| ||||  | || || |  ||||| ||| |    ||| |  | |     ||   ||| | ||  |||| |     |||  | ||||   ||       |   |||||  | |    || || |||                                                                                     
GACTTTGAAGGAAAAGATGAAGGAGTACAACAAAAAAGAGGCAAAATTTTATGGAAATATGTTCAACAAACTGCACAAGCTAGATTCTCTTGACAGTAATgtgagtattccgtctctatagttgctcttaagtat-acat-acatacactc-tagtattccatttcaagtctacgtacgcattggtaatttttgaattagaaa-------------------------------------------------------------------------------------

upper sequence: Vv00s0769g00010.t01 (Vitis vinifera), 5'ss of exon 12
lower sequence: AT3G25230.1 (Arabidopsis thaliana), 5'ss of exon 12
---------------------AACTTTAAAGGAAAAAATGAAGGAGTACAATAAGAAAGAGGCCAAATTCTATGGCAACATGTTTGCAAGGATGAACAAGTTAGAGGCACTCGAGACCAATgtaagtttctaatctatgcattcttgatttgttattatattgcatataagaacagtggtgcattgttagaaggataaaaaattgggtagtaagaaaataaaaataaaattagcaactcaaacattgatatgtatgaacattttcattaatgaatggccctaatggggttttgtgtttgtgatatgcag
                     ||  || ||||| ||||||||||| | |||||| || || |||||||| ||||| ||||||||||| |   | |    || ||   | |    |    ||   |  || |||  ||     |  |  || ||    ||||     ||||  | | |  || |||| | | |   |  |                                                                                                              
GGAAGTGAAGCTAGAGCAGAAAAGGTTGAAGGAGAAAATGAAGGAATTCAATAAAAAGGAAGCCAAATTTTATGGAAACATGTTTGCGAAACTAAGT-

upper sequence: Vv00s0769g00010.t01 (Vitis vinifera), 5'ss of exon 12
lower sequence: AT3G25230.2 (Arabidopsis thaliana), 5'ss of exon 12
---------------------AACTTTAAAGGAAAAAATGAAGGAGTACAATAAGAAAGAGGCCAAATTCTATGGCAACATGTTTGCAAGGATGAACAAGTTAGAGGCACTCGAGACCAATgtaagtttctaatctatgcattcttgatttgttattatattgcatataagaacagtggtgcattgttagaaggataaaaaattgggtagtaagaaaataaaaataaaattagcaactcaaacattgatatgtatgaacattttcattaatgaatggccctaatggggttttgtgtttgtgatatgcag
                     ||  || ||||| ||||||||||| | |||||| || || |||||||| ||||| ||||||||||| |   | |    || ||   | |    |    ||   |  || |||  ||     |  |  || ||    ||||     ||||  | | |  || |||| | | |   |  | ||                                                                                                           
GGAAGTGAAGCTAGAGCAGAAAAGGTTGAAGGAGAAAATGAAGGAATTCAATAAAAAGGAAGCCAAATTTTATGGAAACATGTTTGCGAAACTAAgt--gtaagtatctcaatggtttgatcatatgttataag-tagatgatagtagttagtgggaatatgatg-ataacca-aatcttgtattggtgggaacttgcagaag----------------------------------------------------------------------------------------------------------

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|46910462|gb|CN545837.1|CN545837
EST:     ATGGCAACATGTTTGCAAGGATGAACAAGTTAGAGGCACTCGAGACCAAT                         AAAGCAATTAAGGAGGCAGAACCAATGAGCATAGACAGCAAGGCATAAGTG
genomic: ATGGCAACATGTTTGCAAGGATGAACAAGTTAGAGGCACTCGAGACCAATgtaagtttct ... tgatatgcagAAAGCAACTAAGGAGGCAGAACCAATGAGCATAGACAGCAAGGCATAAGTG
EST: gi|351052096|gb|FQ455389.1|FQ455389
EST:     ATGGCAACATGTTTGCAAGGATGAACAAGTTAGAGGCACTCGAGACCAAT                         AAAGCAACTAAGGAGGCAGAACCAATGAGCATAGACAGCAAGGCATAAGTG
genomic: ATGGCAACATGTTTGCAAGGATGAACAAGTTAGAGGCACTCGAGACCAATgtaagtttct ... tgatatgcagAAAGCAACTAAGGAGGCAGAACCAATGAGCATAGACAGCAAGGCATAAGTG
EST: gi|351030826|gb|FQ438862.1|FQ438862
EST:     ATGGCAACATGTTTGCAAGGATGAACAAGTTAGAGGCACTCGAGACCAAT                         AAAGCAACTAAGGAGGCAGAACCAATGAGCATAGACAGCAAGGCATAAGTG
genomic: ATGGCAACATGTTTGCAAGGATGAACAAGTTAGAGGCACTCGAGACCAATgtaagtttct ... tgatatgcagAAAGCAACTAAGGAGGCAGAACCAATGAGCATAGACAGCAAGGCATAAGTG
EST: gi|32245865|gb|CD711684.1|CD711684
EST:     ATGGCAACATGTTTGCAAGGATGAACAAGTTAGAGGCACTCGAGACCAAT                         AAAGCAACTAAGGAGGCAGAACCAATGAGCATAGACAGCAAGGCATAAGTG
genomic: ATGGCAACATGTTTGCAAGGATGAACAAGTTAGAGGCACTCGAGACCAATgtaagtttct ... tgatatgcagAAAGCAACTAAGGAGGCAGAACCAATGAGCATAGACAGCAAGGCATAAGTG
EST: gi|110690586|gb|EE067825.1|EE067825
EST:     ATGGCAACATGTTTGCAAGGATGAACAAGTTAGAGGCACTCGACACCAAT                         AAAGCAACTAAGGAGGCAGAACCAATGAGCATAGACAGCAAGGCATAAGTG
genomic: ATGGCAACATGTTTGCAAGGATGAACAAGTTAGAGGCACTCGAGACCAATgtaagtttct ... tgatatgcagAAAGCAACTAAGGAGGCAGAACCAATGAGCATAGACAGCAAGGCATAAGTG
EST: gi|30130409|gb|CB915748.1|CB915748
EST:     ATGGCAACATGTTTGCAAGGATGAACAAGTTAGAGGCACTCGAGACCAAT                         AAAGCAACTAAGGAGGCAGAACCAATGAGCATAGACAGCAAGGCATAAGTG
genomic: ATGGCAACATGTTTGCAAGGATGAACAAGTTAGAGGCACTCGAGACCAATgtaagtttct ... tgatatgcagAAAGCAACTAAGGAGGCAGAACCAATGAGCATAGACAGCAAGGCATAAGTG
EST: gi|30129057|gb|CB914396.1|CB914396
EST:     ATGGCAACATGTTTGCAAGGATGAACAAGTTAGAGGCACTCGAGACCAAT                         AAAGCAACTAAGGAGGCAGAACCAATGAGCATAGACAGCAAGGCATAAGTG
genomic: ATGGCAACATGTTTGCAAGGATGAACAAGTTAGAGGCACTCGAGACCAATgtaagtttct ... tgatatgcagAAAGCAACTAAGGAGGCAGAACCAATGAGCATAGACAGCAAGGCATAAGTG
EST: gi|352790570|gb|FQ478209.1|FQ478209
EST:     ATGGCAACATGTTTGCAAGGATGAACAAGTTAGAGGCACTCGAGACCAAT                         AAAGCAACTAAGGAGGCAGAACCAATGAGCATAGACAGCAAGGCATAAGTG
genomic: ATGGCAACATGTTTGCAAGGATGAACAAGTTAGAGGCACTCGAGACCAATgtaagtttct ... tgatatgcagAAAGCAACTAAGGAGGCAGAACCAATGAGCATAGACAGCAAGGCATAAGTG
EST: gi|83275789|gb|DV939797.1|DV939797
EST:     ATGACAACATGTTTGCAAGGATGAACAAGTTAGAGGCACTCGAGACCAAT                         AAAGCAACTAAGGAGGCAGAACCAATGAGCATAGACAGCAAGGCATAAGTG
genomic: ATGGCAACATGTTTGCAAGGATGAACAAGTTAGAGGCACTCGAGACCAATgtaagtttct ... tgatatgcagAAAGCAACTAAGGAGGCAGAACCAATGAGCATAGACAGCAAGGCATAAGTG
EST: gi|110397415|gb|EC963150.1|EC963150
EST:     ATGGCAACATGTTTGCAAGGATGAACAAGTTAGAGGCACTCGAGACCAAT                         AAAGCAACTAAGGAGGCAGAACCAATGAGCATAGACAGCAAGGCATAAGTG
genomic: ATGGCAACATGTTTGCAAGGATGAACAAGTTAGAGGCACTCGAGACCAATgtaagtttct ... tgatatgcagAAAGCAACTAAGGAGGCAGAACCAATGAGCATAGACAGCAAGGCATAAGTG
EST: gi|30136452|gb|CB921790.1|CB921790
EST:     ATGGCAACATGTTTGCAAGGATGAACAAGTTAGAGGCACTCGAGACCAAT                         AAAGCAACTAAGGAGGCAGAACCAATGAGCATAGACAGCAAGGCATAAGTG
genomic: ATGGCAACATGTTTGCAAGGATGAACAAGTTAGAGGCACTCGAGACCAATgtaagtttct ... tgatatgcagAAAGCAACTAAGGAGGCAGAACCAATGAGCATAGACAGCAAGGCATAAGTG
EST: gi|30134437|gb|CB919775.1|CB919775
EST:     ATGGCAACATGTTTGCAAGGATGAACAAGTTAGAGGCACTCGAGACCAAT                         AAAGCAACTAAGGAGGCAGAACCAATGAGCATAGACAGCAAGGCATAAGTG
genomic: ATGGCAACATGTTTGCAAGGATGAACAAGTTAGAGGCACTCGAGACCAATgtaagtttct ... tgatatgcagAAAGCAACTAAGGAGGCAGAACCAATGAGCATAGACAGCAAGGCATAAGTG
EST: gi|32245426|gb|CD711245.1|CD711245
EST:     ATGGCAACATGTTTGCAAGGATGAACAAGTTAGAGGCACTCGAGACCAAT                         AAAGCAACTAAGGAGGCAGAACCAATGAGCATAGACAGCAAGGCATAAGTG
genomic: ATGGCAACATGTTTGCAAGGATGAACAAGTTAGAGGCACTCGAGACCAATgtaagtttct ... tgatatgcagAAAGCAACTAAGGAGGCAGAACCAATGAGCATAGACAGCAAGGCATAAGTG
EST: gi|30132983|gb|CB918322.1|CB918322
EST:     ATGGCAACATGTTTGCAAGGATGAACAAGTTAGAGGCACTCGAGACCAAT                         AAAGCAACTAAGGAGGCAGAACCAATGAGCATAGACAGCAAGGCATAAGTG
genomic: ATGGCAACATGTTTGCAAGGATGAACAAGTTAGAGGCACTCGAGACCAATgtaagtttct ... tgatatgcagAAAGCAACTAAGGAGGCAGAACCAATGAGCATAGACAGCAAGGCATAAGTG
EST: gi|22011028|gb|BQ796062.1|BQ796062
EST:     ATGGCAACATGTTTGCAAGGATGAACAAGTTAGAGGCACTCGAGACCAAT                         AAAGCAACTAAGGAGGCAGAACCAATGAGCATAGACAGCAAGGCATAAGTG
genomic: ATGGCAACATGTTTGCAAGGATGAACAAGTTAGAGGCACTCGAGACCAATgtaagtttct ... tgatatgcagAAAGCAACTAAGGAGGCAGAACCAATGAGCATAGACAGCAAGGCATAAGTG
EST: gi|27582480|gb|CB005175.1|CB005175
EST:     ATGGCAACATGTTTGCAAGGATGAACAAGTTAGAGGCACTCGAGACCAAT                         AAAGCAACTAAGGAGGCAGAACCAATGAGCATAGACAGCAAGGCATAAGTG
genomic: ATGGCAACATGTTTGCAAGGATGAACAAGTTAGAGGCACTCGAGACCAATgtaagtttct ... tgatatgcagAAAGCAACTAAGGAGGCAGAACCAATGAGCATAGACAGCAAGGCATAAGTG
EST: gi|110714352|gb|EE091161.1|EE091161
EST:     ATGGCAACATGTTTGCAAGGATGAACAAGTTAGAGGCACTCGAGACCAAT                         AAAGCAACTAAGGAGGCAGAACCAATGAGCATAGACAGCAAGGCATAAGTG
genomic: ATGGCAACATGTTTGCAAGGATGAACAAGTTAGAGGCACTCGAGACCAATgtaagtttct ... tgatatgcagAAAGCAACTAAGGAGGCAGAACCAATGAGCATAGACAGCAAGGCATAAGTG
EST: gi|349830992|gb|FQ418276.1|FQ418276
EST:     ATGGCAACATGTTTGCAAGGATGAACAAGTTAGAGGCGCTCGAGACCAAT                         AAAGCAACTAAGGAGGCAGAACCAATGAGCATAGACAGCAAGGCATAAGTG
genomic: ATGGCAACATGTTTGCAAGGATGAACAAGTTAGAGGCACTCGAGACCAATgtaagtttct ... tgatatgcagAAAGCAACTAAGGAGGCAGAACCAATGAGCATAGACAGCAAGGCATAAGTG
EST: gi|32249958|gb|CD715777.1|CD715777
EST:     ATGGCAACATGTTTGCAAGGATGAACAAGTTAGAGGCACTCGAGACCAAT                         AAAGCAACTAAGGAGGCAGAACCAATGAGCATAGACAGCAAGGCATAAGTG
genomic: ATGGCAACATGTTTGCAAGGATGAACAAGTTAGAGGCACTCGAGACCAATgtaagtttct ... tgatatgcagAAAGCAACTAAGGAGGCAGAACCAATGAGCATAGACAGCAAGGCATAAGTG
EST: gi|110689806|gb|EE066352.1|EE066352
EST:     ATGGCAACATGTTTGCAAGGATGAACAAGTTAGAGGCACTCGAGACCAAT                         AAAGCAACTAAGGAGGCAGAACC
genomic: ATGGCAACATGTTTGCAAGGATGAACAAGTTAGAGGCACTCGAGACCAATgtaagtttct ... tgatatgcagAAAGCAACTAAGGAGGCAGAACC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AACTTTAAAGGAAAAAATGAAGGAGTACAATAAGAAAGAGGCCAAATTCTATGGCAACATGTTTGCAAGGATGAACAAGTTAGAGGCACTCGAGACCAATgtaagtttctaatctatgcattcttgatttgttattatattgcatataagaacagtggtgcattgttagaaggataaaaaattgggtagtaagaaaataaaaataaaattagcaactcaaacattgatatgtatgaacattttcattaatgaatggccctaatggggttttgtgtttgtgatatgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGATG