Variant report

Variant	rs7069290
Chromosome Location	chr10:98624993-98624994
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:98624988..98626548-chr10:98631935..98633956,2	MCF-7	breast:
2	chr10:98590104..98594418-chr10:98622301..98626032,6	MCF-7	breast:

Variant related genes	Relation type
ENSG00000196233	Chromatin interaction

Extended variants
information (count: 21 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs10399993	0.86[ASW][hapmap];0.91[CHB][hapmap];0.98[CHD][hapmap];0.95[JPT][hapmap];0.84[LWK][hapmap];0.91[MEX][hapmap];0.94[MKK][hapmap];0.90[TSI][hapmap];0.95[YRI][hapmap];0.81[ASN][1000 genomes]
rs10882853	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10882854	1.00[ASW][hapmap];0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10882857	0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2185294	0.80[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.98[GIH][hapmap];1.00[MEX][hapmap];0.86[MKK][hapmap];1.00[TSI][hapmap];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2225344	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3814162	0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4532970	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4542327	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4919056	0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4919058	1.00[ASW][hapmap];0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4919060	0.80[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];1.00[TSI][hapmap];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4919061	1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6584100	0.81[EUR][1000 genomes]
rs6584103	0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7080839	1.00[ASW][hapmap];0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.95[MEX][hapmap];0.94[MKK][hapmap];1.00[TSI][hapmap];0.95[YRI][hapmap];0.84[AFR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7894160	0.93[ASW][hapmap];0.86[CHB][hapmap];0.98[CHD][hapmap];0.95[JPT][hapmap];0.84[LWK][hapmap];0.91[MEX][hapmap];0.94[MKK][hapmap];0.82[TSI][hapmap];0.95[YRI][hapmap];0.81[ASN][1000 genomes]
rs7912176	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9702665	0.91[EUR][1000 genomes];0.88[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	nsv532232	chr10:98360775-99141797	Enhancers Strong transcription Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	53 gene(s)	inside rSNPs	diseases
2	nsv895910	chr10:98386483-98640994	ZNF genes & repeats Weak transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	21 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7069290	CWF19L1	cis	parietal	SCAN

Chromatin state (count:101 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:98594200-98639400	Weak transcription	Thymus	Thymus
2	chr10:98610800-98632200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
3	chr10:98611000-98649800	Weak transcription	H1 Cell Line	embryonic stem cell
4	chr10:98611000-98713000	Weak transcription	Aorta	Aorta
5	chr10:98611200-98640200	Weak transcription	Fetal Heart	heart
6	chr10:98616600-98629600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
7	chr10:98617200-98651600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
8	chr10:98617600-98631600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
9	chr10:98619000-98632600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
10	chr10:98619000-98643200	Weak transcription	Right Ventricle	heart
11	chr10:98619000-98644200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
12	chr10:98619000-98645400	Weak transcription	Dnd41	blood
13	chr10:98619800-98631800	Weak transcription	Spleen	Spleen
14	chr10:98620200-98645800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
15	chr10:98620400-98632600	Weak transcription	Stomach Smooth Muscle	stomach
16	chr10:98620600-98630000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
17	chr10:98621600-98628800	Weak transcription	Primary T cells fromperipheralblood	blood
18	chr10:98622000-98633800	Weak transcription	Brain Germinal Matrix	brain
19	chr10:98622200-98645800	Weak transcription	Fetal Muscle Leg	muscle
20	chr10:98622200-98646000	Weak transcription	Placenta	Placenta
21	chr10:98622400-98625000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
22	chr10:98622400-98626800	Weak transcription	Esophagus	oesophagus
23	chr10:98622400-98630800	Weak transcription	Lung	lung
24	chr10:98622400-98631600	Weak transcription	Primary neutrophils fromperipheralblood	blood
25	chr10:98622400-98632000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
26	chr10:98622400-98632800	Weak transcription	Primary T cells from cord blood	blood
27	chr10:98622400-98638400	Weak transcription	Fetal Thymus	thymus
28	chr10:98622400-98652200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
29	chr10:98622600-98625800	Weak transcription	Monocytes-CD14+_RO01746	blood
30	chr10:98622600-98626400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
31	chr10:98622600-98626800	Weak transcription	Fetal Stomach	stomach
32	chr10:98622600-98628600	Weak transcription	Gastric	stomach
33	chr10:98622600-98629000	Weak transcription	Primary B cells from peripheral blood	blood
34	chr10:98622600-98632000	Weak transcription	Cortex derived primary cultured neurospheres	brain
35	chr10:98622600-98640200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
36	chr10:98622600-98644200	Weak transcription	Primary monocytes fromperipheralblood	blood
37	chr10:98622600-98648800	Weak transcription	Fetal Muscle Trunk	muscle
38	chr10:98622800-98638800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
39	chr10:98623200-98625200	Enhancers	Fetal Intestine Small	intestine
40	chr10:98623200-98626000	Enhancers	Fetal Intestine Large	intestine
41	chr10:98623200-98627000	Weak transcription	Pancreas	Pancrea
42	chr10:98623400-98625000	Enhancers	Pancreatic Islets	Pancreatic Islet
43	chr10:98623400-98625000	Enhancers	HMEC	breast
44	chr10:98623400-98625200	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
45	chr10:98623400-98625400	Enhancers	Rectal Mucosa Donor 31	rectum
46	chr10:98623600-98625000	Enhancers	Brain Anterior Caudate	brain
47	chr10:98623600-98625400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
48	chr10:98623600-98626400	Enhancers	Stomach Mucosa	stomach
49	chr10:98623800-98628200	Weak transcription	Primary T helper cells fromperipheralblood	blood
50	chr10:98623800-98633400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood

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