Difference between revisions of "Grape-amborella"
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| − | [[Image: Screen shot 2012-01-12 at 7.29.33 AM.png|thumb| | + | ==Amborella lacks the eurosid [[paleohexaploidy]] first described in the grape genome== |
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| + | [[File:Master 16737 9048.CDS-CDS.lastz.dag.all.go D20 g10 A4.aligncoords.gcoords ct0.w1000.ass.ks.sr.cs1.csoS.min-.3.log.nsd.png|thumb|center|600px|[[SynMap]] syntenic doplot of grape (y-axis) v amborella (x-axis) with Ks colored gene pairs. Notice that most gene pairs have the same color, indicative that the whole genome duplication events seen in grape are not shared in amborella (otherwise, there would be orthologous and out-paralogous sytnenic gene pairs.)Results may be regenerated at: http://genomevolution.org/r/4fa0]] | ||
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| + | [[File:Master 16737 9048.CDS-CDS.lastz.dag.all.go D20 g10 A4.aligncoords.gcoords ct0.w1000.ass.ks.sr.cs1.csoS.min-.3.log.nsd.hist.png|thumb|400pb|center|Histogram of log10 transformed Ks values of syntenic gene pairs identified between amborella and grape. http://genomevolution.org/r/4fa0]] | ||
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| + | [[File:Master 16737 9050.CDS-CDS.lastz.dag.all.go D20 g10 A4.aligncoords.gcoords ct0.w1000.ass.sr.cs1.csoS.nsd.png|thumb|center|600px|'''With Gene Models''' syntenic dotplot: y-axis grape; x-axis amborella. Results may be regenerated at: http://genomevolution.org/r/4f4v]] | ||
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| + | [[Image: Master 16737 9050.genomic-CDS.lastz.dag.all.go D40 g20 A4.aligncoords.gcoords ct0.w800.ass.sr.cs1.csoS.nsd.png|thumb|center|600px|'''No gene models''' syntenic dotplot: y-axis grape; x-axis amborella. Results may be regenerated at: http://genomevolution.org/r/4e0s]] | ||
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| + | ==[[GEvo]] analyses== | ||
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| + | [[Image: Screen shot 2012-01-12 at 7.29.33 AM.png|thumb|center|800px|GEvo anlaysis of syntenic regions of amborella to 3 grape regions. Notice the pattern of [[fractionation]] among the grape regions when compared to amborella. Results may be regenerated at: http://genomevolution.org/r/4e0q]] | ||
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| + | [[File:Screen shot 2012-05-10 at 2.37.50 PM.png|thumb|center|800px|http://genomevolution.org/r/4s3y]] | ||
Latest revision as of 14:40, 10 May 2012
Amborella lacks the eurosid paleohexaploidy first described in the grape genome
SynMap syntenic doplot of grape (y-axis) v amborella (x-axis) with Ks colored gene pairs. Notice that most gene pairs have the same color, indicative that the whole genome duplication events seen in grape are not shared in amborella (otherwise, there would be orthologous and out-paralogous sytnenic gene pairs.)Results may be regenerated at: http://genomevolution.org/r/4fa0
Histogram of log10 transformed Ks values of syntenic gene pairs identified between amborella and grape. http://genomevolution.org/r/4fa0
With Gene Models syntenic dotplot: y-axis grape; x-axis amborella. Results may be regenerated at: http://genomevolution.org/r/4f4v
No gene models syntenic dotplot: y-axis grape; x-axis amborella. Results may be regenerated at: http://genomevolution.org/r/4e0s
GEvo analyses
GEvo anlaysis of syntenic regions of amborella to 3 grape regions. Notice the pattern of fractionation among the grape regions when compared to amborella. Results may be regenerated at: http://genomevolution.org/r/4e0q
