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3-ECRs synteny blocks defined based on ECR Browser whole-genome ECRs.


Base genomeSecondary genomeNumber of synteny blocksDateSizeFile
Human (hg18)
Macaque (rheMac2)24102-25-200820.8kbsynteny.hg18rheMac2.txt
Chimp (panTro2)1.2k03-24-2008106.0kbsynteny.hg18panTro2.txt
Mouse (mm9)39601-08-200835.0kbsynteny.hg18mm9.txt
Rat (rn4)40601-08-200835.9kbsynteny.hg18rn4.txt
Cow (bosTau3)1.1k02-18-200896.8kbsynteny.hg18bosTau3.txt
Dog (canFam2)002-26-20080synteny.hg18canFam2.txt
Opossum (monDom4)66202-24-200858.1kbsynteny.hg18monDom4.txt
Chicken (galGal3)61901-07-200853.5kbsynteny.hg18galGal3.txt
Frog (xenTro2)1.8k01-08-2008163.0kbsynteny.hg18xenTro2.txt
Zebrafish (danRer5)2.5k02-07-2008210.2kbsynteny.hg18danRer5.txt
Fugu (fr2)1.8k01-07-2008158.0kbsynteny.hg18fr2.txt
Tetraodon (tetNig1)1.7k02-12-2008146.4kbsynteny.hg18tetNig1.txt
Macaque (rheMac2)
Human (hg18)14102-26-200812.3kbsynteny.rheMac2hg18.txt
Mouse (mm9)34402-12-200830.5kbsynteny.rheMac2mm9.txt
Rat (rn4)39402-12-200834.8kbsynteny.rheMac2rn4.txt
Cow (bosTau3)97702-29-200885.6kbsynteny.rheMac2bosTau3.txt
Dog (canFam2)22402-12-200819.9kbsynteny.rheMac2canFam2.txt
Opossum (monDom4)65902-24-200857.8kbsynteny.rheMac2monDom4.txt
Chicken (galGal3)60002-12-200851.7kbsynteny.rheMac2galGal3.txt
Frog (xenTro2)1.8k02-12-2008163.0kbsynteny.rheMac2xenTro2.txt
Zebrafish (danRer5)2.4k03-04-2008195.7kbsynteny.rheMac2danRer5.txt
Fugu (fr2)1.8k02-12-2008157.7kbsynteny.rheMac2fr2.txt
Tetraodon (tetNig1)1.7k03-04-2008146.2kbsynteny.rheMac2tetNig1.txt
Chimp (panTro2)
Human (hg18)96203-26-200882.7kbsynteny.panTro2hg18.txt
Mouse (mm9)42802-05-200838.1kbsynteny.panTro2mm9.txt
Rat (rn4)43702-05-200838.7kbsynteny.panTro2rn4.txt
Dog (canFam2)001-11-20080synteny.panTro2canFam2.txt
Opossum (monDom4)71302-24-200862.7kbsynteny.panTro2monDom4.txt
Chicken (galGal3)64001-11-200855.4kbsynteny.panTro2galGal3.txt
Frog (xenTro2)1.7k01-12-2008147.8kbsynteny.panTro2xenTro2.txt
Fugu (fr2)1.9k01-11-2008159.8kbsynteny.panTro2fr2.txt
Mouse (mm9)
Human (hg18)36401-08-200832.3kbsynteny.mm9hg18.txt
Macaque (rheMac2)35401-08-200831.4kbsynteny.mm9rheMac2.txt
Chimp (panTro2)38701-08-200834.5kbsynteny.mm9panTro2.txt
Rat (rn4)25702-04-200822.4kbsynteny.mm9rn4.txt
Dog (canFam2)37401-08-200833.1kbsynteny.mm9canFam2.txt
Opossum (monDom4)88502-24-200877.7kbsynteny.mm9monDom4.txt
Chicken (galGal3)76501-08-200866.1kbsynteny.mm9galGal3.txt
Frog (xenTro2)1.9k01-09-2008164.3kbsynteny.mm9xenTro2.txt
Zebrafish (danRer5)2.4k02-05-2008200.1kbsynteny.mm9danRer5.txt
Fugu (fr2)1.6k01-08-2008138.4kbsynteny.mm9fr2.txt
Rat (rn4)
Human (hg18)39501-09-200834.9kbsynteny.rn4hg18.txt
Macaque (rheMac2)38402-28-200834.1kbsynteny.rn4rheMac2.txt
Chimp (panTro2)41102-06-200836.5kbsynteny.rn4panTro2.txt
Mouse (mm9)26702-11-200823.3kbsynteny.rn4mm9.txt
Dog (canFam2)38901-09-200834.3kbsynteny.rn4canFam2.txt
Opossum (monDom4)97802-24-200885.7kbsynteny.rn4monDom4.txt
Chicken (galGal3)82101-09-200870.8kbsynteny.rn4galGal3.txt
Frog (xenTro2)1.9k01-09-2008169.6kbsynteny.rn4xenTro2.txt
Fugu (fr2)1.6k01-09-2008138.7kbsynteny.rn4fr2.txt
Cow (bosTau3)
Human (hg18)1.2k02-18-2008107.1kbsynteny.bosTau3hg18.txt
Macaque (rheMac2)1.1k02-29-200897.2kbsynteny.bosTau3rheMac2.txt
Opossum (monDom4)1.9k02-27-2008165.2kbsynteny.bosTau3monDom4.txt
Chicken (galGal3)80801-10-200868.9kbsynteny.bosTau3galGal3.txt
Frog (xenTro2)2.0k01-10-2008172.5kbsynteny.bosTau3xenTro2.txt
Fugu (fr2)2.0k01-10-2008165.9kbsynteny.bosTau3fr2.txt
Dog (canFam2)
Human (hg18)28002-26-200824.8kbsynteny.canFam2hg18.txt
Macaque (rheMac2)26901-10-200823.8kbsynteny.canFam2rheMac2.txt
Chimp (panTro2)29901-10-200826.6kbsynteny.canFam2panTro2.txt
Mouse (mm9)37801-10-200833.4kbsynteny.canFam2mm9.txt
Rat (rn4)39301-11-200834.6kbsynteny.canFam2rn4.txt
Opossum (monDom4)69702-24-200861.0kbsynteny.canFam2monDom4.txt
Chicken (galGal3)45601-10-200839.0kbsynteny.canFam2galGal3.txt
Opossum (monDom4)
Human (hg18)69802-21-200861.3kbsynteny.monDom4hg18.txt
Macaque (rheMac2)68802-24-200860.5kbsynteny.monDom4rheMac2.txt
Chimp (panTro2)75202-24-200866.2kbsynteny.monDom4panTro2.txt
Mouse (mm9)83902-24-200873.9kbsynteny.monDom4mm9.txt
Rat (rn4)89002-24-200878.1kbsynteny.monDom4rn4.txt
Cow (bosTau3)1.6k02-22-2008144.1kbsynteny.monDom4bosTau3.txt
Dog (canFam2)67802-22-200859.5kbsynteny.monDom4canFam2.txt
Chicken (galGal3)88802-22-200876.9kbsynteny.monDom4galGal3.txt
Frog (xenTro2)2.1k02-22-2008188.7kbsynteny.monDom4xenTro2.txt
Zebrafish (danRer5)2.4k02-22-2008199.5kbsynteny.monDom4danRer5.txt
Fugu (fr2)1.7k02-21-2008147.2kbsynteny.monDom4fr2.txt
Tetraodon (tetNig1)1.5k02-22-2008131.1kbsynteny.monDom4tetNig1.txt
Chicken (galGal3)
Human (hg18)64301-08-200855.5kbsynteny.galGal3hg18.txt
Macaque (rheMac2)60901-08-200852.5kbsynteny.galGal3rheMac2.txt
Chimp (panTro2)63901-08-200855.3kbsynteny.galGal3panTro2.txt
Mouse (mm9)76501-08-200865.9kbsynteny.galGal3mm9.txt
Rat (rn4)82301-08-200870.8kbsynteny.galGal3rn4.txt
Cow (bosTau3)82401-08-200870.4kbsynteny.galGal3bosTau3.txt
Dog (canFam2)42101-08-200836.1kbsynteny.galGal3canFam2.txt
Opossum (monDom4)91402-24-200879.0kbsynteny.galGal3monDom4.txt
Frog (xenTro2)1.2k01-08-2008109.1kbsynteny.galGal3xenTro2.txt
Zebrafish (danRer5)1.7k01-08-2008141.6kbsynteny.galGal3danRer5.txt
Fugu (fr2)1.3k01-08-2008107.2kbsynteny.galGal3fr2.txt
Tetraodon (tetNig1)83001-08-200867.7kbsynteny.galGal3tetNig1.txt
Frog (xenTro2)
Human (hg18)1.9k01-09-2008164.8kbsynteny.xenTro2hg18.txt
Macaque (rheMac2)1.9k01-09-2008163.6kbsynteny.xenTro2rheMac2.txt
Chimp (panTro2)1.9k01-09-2008166.9kbsynteny.xenTro2panTro2.txt
Mouse (mm9)1.9k01-09-2008170.4kbsynteny.xenTro2mm9.txt
Rat (rn4)1.9k01-09-2008169.6kbsynteny.xenTro2rn4.txt
Cow (bosTau3)2.0k01-09-2008172.6kbsynteny.xenTro2bosTau3.txt
Opossum (monDom4)2.2k02-27-2008196.4kbsynteny.xenTro2monDom4.txt
Chicken (galGal3)1.3k01-09-2008109.7kbsynteny.xenTro2galGal3.txt
Zebrafish (danRer5)2.4k01-09-2008203.4kbsynteny.xenTro2danRer5.txt
Fugu (fr2)1.7k01-09-2008151.4kbsynteny.xenTro2fr2.txt
Tetraodon (tetNig1)1.1k01-09-200890.6kbsynteny.xenTro2tetNig1.txt
Zebrafish (danRer5)
Human (hg18)2.5k02-07-2008213.2kbsynteny.danRer5hg18.txt
Macaque (rheMac2)2.5k03-04-2008206.0kbsynteny.danRer5rheMac2.txt
Mouse (mm9)2.4k02-27-2008206.2kbsynteny.danRer5mm9.txt
Opossum (monDom4)2.5k02-27-2008213.4kbsynteny.danRer5monDom4.txt
Chicken (galGal3)1.6k01-11-2008130.2kbsynteny.danRer5galGal3.txt
Frog (xenTro2)2.0k01-11-2008178.9kbsynteny.danRer5xenTro2.txt
Fugu (fr2)1.6k01-11-2008136.1kbsynteny.danRer5fr2.txt
Fugu (fr2)
Human (hg18)1.9k01-11-2008164.5kbsynteny.fr2hg18.txt
Macaque (rheMac2)1.8k01-11-2008155.8kbsynteny.fr2rheMac2.txt
Chimp (panTro2)1.9k01-11-2008162.3kbsynteny.fr2panTro2.txt
Mouse (mm9)1.9k01-11-2008159.3kbsynteny.fr2mm9.txt
Rat (rn4)1.9k01-11-2008158.5kbsynteny.fr2rn4.txt
Cow (bosTau3)1.9k01-11-2008160.1kbsynteny.fr2bosTau3.txt
Opossum (monDom4)1.9k02-27-2008159.5kbsynteny.fr2monDom4.txt
Chicken (galGal3)1.2k01-11-2008102.7kbsynteny.fr2galGal3.txt
Frog (xenTro2)1.6k01-11-2008138.9kbsynteny.fr2xenTro2.txt
Zebrafish (danRer5)2.2k01-11-2008190.4kbsynteny.fr2danRer5.txt
Tetraodon (tetNig1)37501-11-200832.4kbsynteny.fr2tetNig1.txt
Tetraodon (tetNig1)
Human (hg18)1.8k02-12-2008155.2kbsynteny.tetNig1hg18.txt
Macaque (rheMac2)1.8k03-04-2008153.2kbsynteny.tetNig1rheMac2.txt
Opossum (monDom4)1.9k02-27-2008158.9kbsynteny.tetNig1monDom4.txt
Chicken (galGal3)79801-12-200865.2kbsynteny.tetNig1galGal3.txt
Frog (xenTro2)1.1k01-12-200890.3kbsynteny.tetNig1xenTro2.txt
Fugu (fr2)45301-12-200838.9kbsynteny.tetNig1fr2.txt


File format: <location1> <length1> <location2> <length2> <numberOfECRs> <strand>

Synteny block definition:
First, all triplets of ECRs consecutively present in both species (two neighboring ECRs
were selected as consecutively located only if they were separated by <100kb in both
genomes) were extracted. These ECR triplets defined anchors of genome similarity and
then were used to construct long syntenic blocks by clustering ECR triplets together
using the 100kb threshold again. (Method originally described in
Ovcharenko et. al, Genome Research, (2005).)



NCBI DCODE.org Comparative Genomics Developments (www.dcode.org)