Variant report

Variant	rs7640502
Chromosome Location	chr3:69264796-69264797
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 41 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs13073189	0.89[YRI][hapmap];0.95[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs34263064	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs34416281	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34511838	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs35401661	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs35423263	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs35461234	0.85[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs35466234	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs35530977	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs35860408	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs36022055	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4075188	0.81[CEU][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.83[TSI][hapmap];0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs4582065	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4621334	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4855301	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62254460	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6772387	1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs6776027	0.81[CEU][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs6776243	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs6781505	0.81[CEU][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs6781739	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs6782869	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs6784841	0.81[CEU][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.83[TSI][hapmap];0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs6785253	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs6804872	1.00[CHD][hapmap];1.00[JPT][hapmap]
rs6806528	0.81[CEU][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.83[TSI][hapmap];0.81[EUR][1000 genomes]
rs73097720	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs73097725	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73097726	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73097738	0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs73097740	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7611476	0.89[CEU][hapmap];1.00[CHD][hapmap];0.83[GIH][hapmap];0.82[MEX][hapmap];0.96[TSI][hapmap];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7616440	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7619005	0.88[EUR][1000 genomes]
rs7639425	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9836612	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9848178	0.83[CEU][hapmap];0.83[GIH][hapmap];0.92[TSI][hapmap];0.80[EUR][1000 genomes]
rs9860365	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9868056	1.00[CHD][hapmap];1.00[JPT][hapmap]

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	esv3398378	chr3:69240573-69271936	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
2	nsv237526	chr3:69264462-69265580	Weak transcription Strong transcription Genic enhancers	n/a	n/a	inside rSNPs	n/a

No data

Chromatin state (count:73 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:69232000-69275600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
2	chr3:69242400-69281600	Weak transcription	Brain Germinal Matrix	brain
3	chr3:69242600-69268800	Weak transcription	Spleen	Spleen
4	chr3:69244000-69264800	Weak transcription	Fetal Brain Female	brain
5	chr3:69246200-69266800	Weak transcription	HSMM	muscle
6	chr3:69250000-69269200	Weak transcription	Thymus	Thymus
7	chr3:69250000-69272400	Weak transcription	Sigmoid Colon	Sigmoid Colon
8	chr3:69250000-69281600	Weak transcription	Esophagus	oesophagus
9	chr3:69250200-69268800	Weak transcription	Duodenum Smooth Muscle	Duodenum
10	chr3:69250200-69268800	Weak transcription	Ovary	ovary
11	chr3:69250200-69286000	Weak transcription	Colonic Mucosa	Colon
12	chr3:69250400-69264800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr3:69250400-69268400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
14	chr3:69250400-69280000	Weak transcription	Fetal Kidney	kidney
15	chr3:69253000-69266400	Weak transcription	Small Intestine	intestine
16	chr3:69253000-69297600	Weak transcription	Gastric	stomach
17	chr3:69253400-69277400	Weak transcription	Left Ventricle	heart
18	chr3:69253600-69266600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
19	chr3:69253600-69267600	Weak transcription	Placenta	Placenta
20	chr3:69254000-69280800	Weak transcription	Pancreas	Pancrea
21	chr3:69254000-69286000	Weak transcription	Right Ventricle	heart
22	chr3:69254600-69299000	Weak transcription	Fetal Brain Male	brain
23	chr3:69256600-69269200	Weak transcription	Adipose Nuclei	Adipose
24	chr3:69259400-69266600	Weak transcription	Rectal Mucosa Donor 31	rectum
25	chr3:69260000-69285800	Weak transcription	Skeletal Muscle Female	skeletal muscle
26	chr3:69261000-69269800	Weak transcription	Fetal Muscle Leg	muscle
27	chr3:69261000-69272800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
28	chr3:69261000-69280400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
29	chr3:69262000-69265600	Weak transcription	Primary T helper cells fromperipheralblood	blood
30	chr3:69262200-69266200	Weak transcription	HUES6 Cell Line	embryonic stem cell
31	chr3:69262200-69274200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
32	chr3:69262400-69276000	Weak transcription	Pancreatic Islets	Pancreatic Islet
33	chr3:69262600-69286200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
34	chr3:69262800-69265000	Strong transcription	Fetal Thymus	thymus
35	chr3:69262800-69265200	Strong transcription	Fetal Intestine Small	intestine
36	chr3:69262800-69265200	Strong transcription	Fetal Stomach	stomach
37	chr3:69263000-69264800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
38	chr3:69263000-69265400	Strong transcription	Fetal Intestine Large	intestine
39	chr3:69263000-69266200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
40	chr3:69263000-69269000	Weak transcription	Primary neutrophils fromperipheralblood	blood
41	chr3:69263000-69273800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
42	chr3:69263000-69274200	Strong transcription	Monocytes-CD14+_RO01746	blood
43	chr3:69263200-69265000	Strong transcription	Fetal Lung	lung
44	chr3:69263200-69265200	Strong transcription	Liver	Liver
45	chr3:69263200-69274000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
46	chr3:69263200-69274200	Strong transcription	Dnd41	blood
47	chr3:69263200-69274400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
48	chr3:69263400-69275000	Weak transcription	Stomach Mucosa	stomach
49	chr3:69263600-69273800	Strong transcription	Primary monocytes fromperipheralblood	blood
50	chr3:69263600-69275000	Weak transcription	Brain Cingulate Gyrus	brain

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