Variant report

Variant	rs7733705
Chromosome Location	chr5:59635353-59635354
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs10461451	0.87[YRI][hapmap];0.88[AFR][1000 genomes]
rs12653863	0.88[AFR][1000 genomes]
rs13165296	1.00[CEU][hapmap];0.86[CHB][hapmap];0.86[CHD][hapmap];1.00[GIH][hapmap];0.86[JPT][hapmap];0.94[MEX][hapmap];1.00[TSI][hapmap];0.92[EUR][1000 genomes]
rs13168619	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs13171028	0.88[YRI][hapmap];0.88[AFR][1000 genomes]
rs13172481	1.00[CEU][hapmap];0.86[CHB][hapmap];0.86[CHD][hapmap];1.00[GIH][hapmap];0.86[JPT][hapmap];0.94[MEX][hapmap];1.00[TSI][hapmap];0.84[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1423246	0.81[GIH][hapmap]
rs16874969	1.00[CEU][hapmap];0.86[CHB][hapmap];0.88[CHD][hapmap];1.00[GIH][hapmap];0.86[JPT][hapmap];0.94[MEX][hapmap];0.95[TSI][hapmap]
rs34038162	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34353877	0.88[AFR][1000 genomes]
rs35335033	0.89[EUR][1000 genomes]
rs35644384	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35811820	0.88[AFR][1000 genomes]
rs35914313	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs36050835	0.88[AFR][1000 genomes]
rs4349679	0.87[ASW][hapmap];0.93[GIH][hapmap];0.97[LWK][hapmap];0.93[MKK][hapmap];0.95[TSI][hapmap];0.88[YRI][hapmap];0.88[AFR][1000 genomes]
rs4394088	0.87[ASW][hapmap];0.96[GIH][hapmap];0.97[LWK][hapmap];0.93[MKK][hapmap];0.95[TSI][hapmap];0.88[YRI][hapmap];0.88[AFR][1000 genomes]
rs4502776	0.94[CEU][hapmap];0.86[CHB][hapmap];0.86[JPT][hapmap];0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4580739	0.81[GIH][hapmap]
rs4699954	1.00[CEU][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs56341652	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57237852	0.91[AFR][1000 genomes]
rs6449466	0.87[AFR][1000 genomes]
rs6449468	0.88[AFR][1000 genomes]
rs6860626	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6861084	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6862735	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.97[LWK][hapmap];1.00[MEX][hapmap];0.99[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6869495	1.00[CEU][hapmap];0.93[GIH][hapmap];0.90[TSI][hapmap];0.89[EUR][1000 genomes]
rs6897671	0.81[GIH][hapmap]
rs71630006	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7706560	0.92[EUR][1000 genomes]
rs7711093	1.00[CEU][hapmap];0.86[CHB][hapmap];0.86[CHD][hapmap];1.00[GIH][hapmap];0.86[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap]
rs7735958	1.00[CEU][hapmap];0.91[CHB][hapmap];0.86[JPT][hapmap]
rs7737905	0.81[GIH][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1025856	chr5:59188419-59928852	Enhancers Strong transcription Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
2	nsv830316	chr5:59480269-59689829	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
3	nsv598288	chr5:59627555-60003460	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:59625200-59646800	Weak transcription	Primary B cells from cord blood	blood
2	chr5:59626600-59635800	Weak transcription	Fetal Stomach	stomach
3	chr5:59630800-59635400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
4	chr5:59630800-59635400	Weak transcription	Osteobl	bone
5	chr5:59631000-59635400	Weak transcription	HMEC	breast
6	chr5:59631000-59635400	Weak transcription	NHDF-Ad	bronchial
7	chr5:59631200-59635600	Weak transcription	Aorta	Aorta
8	chr5:59632600-59637200	Weak transcription	Rectal Smooth Muscle	rectum
9	chr5:59634200-59635600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
10	chr5:59634600-59635400	Enhancers	Stomach Smooth Muscle	stomach
11	chr5:59634800-59635600	Enhancers	Fetal Brain Male	brain
12	chr5:59635000-59635400	Enhancers	Brain Hippocampus Middle	brain
13	chr5:59635200-59635400	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
14	chr5:59635200-59635400	Enhancers	Brain Substantia Nigra	brain
15	chr5:59635200-59635400	Enhancers	GM12878-XiMat	blood
16	chr5:59635200-59635600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
17	chr5:59635200-59635600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
18	chr5:59635200-59635600	Enhancers	Brain Anterior Caudate	brain
19	chr5:59635200-59635800	Enhancers	Primary B cells from peripheral blood	blood
20	chr5:59635200-59636000	Enhancers	Colon Smooth Muscle	Colon
21	chr5:59635200-59636000	Enhancers	Fetal Muscle Leg	muscle
22	chr5:59635200-59636400	Enhancers	Cortex derived primary cultured neurospheres	brain
23	chr5:59635200-59637400	Enhancers	Muscle Satellite Cultured Cells	--
24	chr5:59635200-59638600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell

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