Variant report

Variant	rs530842
Chromosome Location	chr3:43101132-43101133
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 63 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:61)

rs_ID	r²[population]
rs10470680	1.00[ASN][1000 genomes]
rs12629332	1.00[CHB][hapmap]
rs1392319	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs1403525	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs17074894	1.00[ASN][1000 genomes]
rs1816227	1.00[ASN][1000 genomes]
rs28378297	1.00[ASN][1000 genomes]
rs28601753	1.00[ASN][1000 genomes]
rs28655956	1.00[ASN][1000 genomes]
rs28673478	1.00[ASN][1000 genomes]
rs3915020	1.00[ASN][1000 genomes]
rs473467	0.90[YRI][hapmap]
rs477594	0.85[YRI][hapmap]
rs487463	0.92[YRI][hapmap];0.89[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs489117	1.00[CHB][hapmap];0.84[YRI][hapmap];0.89[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs504973	0.90[YRI][hapmap]
rs534284	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs551658	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs604393	1.00[CHB][hapmap];1.00[GIH][hapmap];1.00[ASN][1000 genomes]
rs61004728	1.00[ASN][1000 genomes]
rs617014	1.00[ASN][1000 genomes]
rs62248962	1.00[ASN][1000 genomes]
rs62249006	1.00[ASN][1000 genomes]
rs62249007	1.00[ASN][1000 genomes]
rs62249008	1.00[ASN][1000 genomes]
rs62249009	1.00[ASN][1000 genomes]
rs62249011	1.00[ASN][1000 genomes]
rs62249013	1.00[ASN][1000 genomes]
rs62249014	1.00[ASN][1000 genomes]
rs62249016	1.00[ASN][1000 genomes]
rs62249584	1.00[ASN][1000 genomes]
rs651899	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs6763762	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs6773223	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs6775999	1.00[ASN][1000 genomes]
rs678310	1.00[CHB][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.88[MKK][hapmap];0.86[YRI][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6798412	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs680967	1.00[CHB][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[ASN][1000 genomes]
rs681341	1.00[CHB][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[ASN][1000 genomes]
rs686464	0.86[YRI][hapmap]
rs735320	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs73832423	1.00[ASN][1000 genomes]
rs73832424	1.00[ASN][1000 genomes]
rs7617715	1.00[ASN][1000 genomes]
rs7641452	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs7644923	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs9311330	1.00[ASN][1000 genomes]
rs9311331	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs9808932	1.00[ASN][1000 genomes]
rs9815609	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs9816391	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs9824700	1.00[ASN][1000 genomes]
rs9828785	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs9833284	1.00[ASN][1000 genomes]
rs9837761	1.00[ASN][1000 genomes]
rs9840349	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs9852930	1.00[ASN][1000 genomes]
rs9858270	1.00[ASN][1000 genomes]
rs9862469	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs9865715	1.00[CHB][hapmap]
rs9870478	1.00[CHB][hapmap];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 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

No data

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:43092800-43117800	Weak transcription	Placenta Amnion	Placenta Amnion
2	chr3:43093400-43120200	Weak transcription	Brain Cingulate Gyrus	brain
3	chr3:43094200-43104200	Weak transcription	Gastric	stomach
4	chr3:43094400-43101400	Weak transcription	Brain Hippocampus Middle	brain
5	chr3:43094400-43101800	Weak transcription	Placenta	Placenta
6	chr3:43094400-43114800	Weak transcription	Brain Anterior Caudate	brain
7	chr3:43095000-43114800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
8	chr3:43095800-43104400	Weak transcription	H9 Cell Line	embryonic stem cell
9	chr3:43096200-43121200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
10	chr3:43096800-43102600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
11	chr3:43097200-43104600	Weak transcription	Brain Substantia Nigra	brain
12	chr3:43098000-43101200	Weak transcription	Fetal Stomach	stomach
13	chr3:43098800-43104200	Weak transcription	Ovary	ovary
14	chr3:43100200-43120200	Weak transcription	Brain Angular Gyrus	brain
15	chr3:43101000-43101600	ZNF genes & repeats	Brain Inferior Temporal Lobe	brain
16	chr3:43101000-43101800	ZNF genes & repeats	Fetal Muscle Leg	muscle
17	chr3:43101000-43102000	Strong transcription	Duodenum Smooth Muscle	Duodenum
18	chr3:43101000-43102200	ZNF genes & repeats	Stomach Smooth Muscle	stomach
19	chr3:43101000-43102400	Strong transcription	Liver	Liver
20	chr3:43101000-43102600	ZNF genes & repeats	ES-UCSF4 Cell Line	embryonic stem cell
21	chr3:43101000-43102800	ZNF genes & repeats	Breast Myoepithelial Primary Cells	Breast
22	chr3:43101000-43105000	Enhancers	Fetal Thymus	thymus

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