Variant report

Variant	rs686464
Chromosome Location	chr3:43085649-43085650
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs11710681	0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11711497	0.91[CEU][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11711635	0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12492075	1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs1523123	0.95[EUR][1000 genomes]
rs1533697	0.90[CEU][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17075084	0.90[CEU][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs17469356	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3732858	1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs473467	0.97[YRI][hapmap];0.83[AFR][1000 genomes]
rs477594	0.90[YRI][hapmap]
rs487463	0.90[YRI][hapmap];0.81[AFR][1000 genomes]
rs489117	0.83[YRI][hapmap];0.81[AFR][1000 genomes]
rs504973	0.97[YRI][hapmap];0.83[AFR][1000 genomes]
rs530842	0.86[YRI][hapmap]
rs536119	0.83[YRI][hapmap]
rs537396	0.84[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs540864	1.00[CEU][hapmap];0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs55989335	0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs57079337	0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs57758537	0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs601055	1.00[CEU][hapmap];0.86[CHB][hapmap];0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs62247069	0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs62247120	0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs62247121	0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs62247124	0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs62247127	0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs678310	0.86[YRI][hapmap]
rs834189	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

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	nsv460522	chr3:42967597-43175207	Weak transcription Active TSS Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	nsv590149	chr3:42967597-43175207	Flanking Active TSS ZNF genes & repeats Enhancers Weak transcription Bivalent/Poised TSS Strong transcription Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
3	nsv432417	chr3:43045796-43098296	ZNF genes & repeats Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:43080200-43091000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
2	chr3:43083400-43085800	ZNF genes & repeats	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr3:43084200-43087600	Enhancers	Liver	Liver
4	chr3:43084400-43086400	ZNF genes & repeats	ES-UCSF4 Cell Line	embryonic stem cell
5	chr3:43084600-43086000	Enhancers	Brain Inferior Temporal Lobe	brain
6	chr3:43084600-43086400	Enhancers	Fetal Brain Male	brain
7	chr3:43085000-43097600	Weak transcription	Ovary	ovary
8	chr3:43085200-43086400	ZNF genes & repeats	iPS-20b Cell Line	embryonic stem cell
9	chr3:43085200-43094200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
10	chr3:43085400-43086200	ZNF genes & repeats	Brain Hippocampus Middle	brain
11	chr3:43085400-43086200	ZNF genes & repeats	Fetal Muscle Leg	muscle
12	chr3:43085600-43086000	ZNF genes & repeats	Fetal Stomach	stomach
13	chr3:43085600-43086600	ZNF genes & repeats	Foreskin Melanocyte Primary Cells skin01	Skin

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