Variant report

Variant	rs9835757
Chromosome Location	chr3:115868026-115868027
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs10511355	0.88[CHB][hapmap];0.85[JPT][hapmap]
rs12330535	0.95[ASN][1000 genomes]
rs13078076	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs1461109	0.98[ASN][1000 genomes]
rs1461116	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs1461132	0.81[ASN][1000 genomes]
rs1461134	0.83[ASN][1000 genomes]
rs1468003	0.88[CHB][hapmap];0.85[JPT][hapmap]
rs1898	0.88[CHB][hapmap];0.85[JPT][hapmap]
rs1947689	0.88[CHB][hapmap];0.85[JPT][hapmap]
rs2864074	0.88[CHB][hapmap];0.85[JPT][hapmap];0.81[ASN][1000 genomes]
rs2864075	0.81[ASN][1000 genomes]
rs56138725	0.83[ASN][1000 genomes]
rs6438299	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs6438300	0.88[CHB][hapmap];0.85[JPT][hapmap]
rs6438303	0.88[CHB][hapmap];0.85[JPT][hapmap]
rs6438304	0.88[CHB][hapmap];0.85[JPT][hapmap]
rs6807792	1.00[CHB][hapmap];0.85[JPT][hapmap]
rs7618443	0.81[ASN][1000 genomes]
rs7629590	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs7638493	0.88[CHB][hapmap];0.85[JPT][hapmap]
rs7640143	0.88[CHB][hapmap];0.85[JPT][hapmap]
rs7641198	0.88[CHB][hapmap];0.85[JPT][hapmap]
rs7644082	0.86[CHB][hapmap];0.85[JPT][hapmap];0.81[ASN][1000 genomes]
rs9812548	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs9818695	1.00[CHB][hapmap];0.85[JPT][hapmap];0.98[ASN][1000 genomes]
rs9826725	0.83[ASN][1000 genomes]
rs9834589	0.88[CHB][hapmap];0.85[JPT][hapmap]
rs9834897	0.88[CHB][hapmap];0.85[JPT][hapmap]
rs9870541	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs9872975	0.94[ASN][1000 genomes]
rs9875609	0.88[CHB][hapmap];0.85[JPT][hapmap];0.81[ASN][1000 genomes]
rs998807	0.88[CHB][hapmap];0.85[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1012260	chr3:115680931-115935968	Enhancers Active TSS Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	esv2756413	chr3:115721898-115908480	Enhancers Weak transcription Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
3	esv2751975	chr3:115766285-115902901	Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
4	esv2755046	chr3:115818840-115942952	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
5	nsv591345	chr3:115819376-115902901	Enhancers Flanking Active TSS Weak transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
6	esv2752728	chr3:115833212-115902901	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
7	esv2751976	chr3:115867310-115903310	Enhancers Weak transcription Active TSS Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:32 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:115866600-115869000	Enhancers	Brain Cingulate Gyrus	brain
2	chr3:115866800-115871600	Enhancers	Brain Germinal Matrix	brain
3	chr3:115867200-115868400	Enhancers	Brain Anterior Caudate	brain
4	chr3:115867200-115868600	Enhancers	Brain Inferior Temporal Lobe	brain
5	chr3:115867200-115869000	Enhancers	Brain Substantia Nigra	brain
6	chr3:115867200-115869800	Enhancers	Cortex derived primary cultured neurospheres	brain
7	chr3:115867200-115870200	Enhancers	HUES64 Cell Line	embryonic stem cell
8	chr3:115867200-115870200	Enhancers	Brain Angular Gyrus	brain
9	chr3:115867400-115868200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
10	chr3:115867400-115868800	Enhancers	Fetal Lung	lung
11	chr3:115867400-115869200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
12	chr3:115867400-115869600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
13	chr3:115867600-115868200	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr3:115867600-115868400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
15	chr3:115867600-115868800	Enhancers	HUES6 Cell Line	embryonic stem cell
16	chr3:115867600-115869200	Enhancers	ES-I3 Cell Line	embryonic stem cell
17	chr3:115867600-115869800	Enhancers	iPS-20b Cell Line	embryonic stem cell
18	chr3:115867600-115870200	Enhancers	HUES48 Cell Line	embryonic stem cell
19	chr3:115867800-115868200	Enhancers	H9 Cell Line	embryonic stem cell
20	chr3:115867800-115868200	Enhancers	Esophagus	oesophagus
21	chr3:115867800-115868200	Enhancers	NH-A	brain
22	chr3:115867800-115868400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
23	chr3:115867800-115868400	Flanking Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
24	chr3:115867800-115868400	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
25	chr3:115867800-115868600	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
26	chr3:115867800-115868600	Active TSS	Pancreatic Islets	Pancreatic Islet
27	chr3:115867800-115868800	Enhancers	Muscle Satellite Cultured Cells	--
28	chr3:115867800-115869400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
29	chr3:115867800-115870400	Enhancers	iPS-15b Cell Line	embryonic stem cell
30	chr3:115868000-115868200	Enhancers	Brain Hippocampus Middle	brain
31	chr3:115868000-115868400	Enhancers	Fetal Brain Male	brain
32	chr3:115868000-115868600	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived

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