Variant report

Variant	rs792232
Chromosome Location	chr10:90147344-90147345
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:89631936..89633868-chr10:90147243..90149574,2	MCF-7	breast:
2	chr10:89619905..89627532-chr10:90145841..90152433,14	MCF-7	breast:
3	chr10:90105325..90109071-chr10:90144209..90148400,3	MCF-7	breast:
4	chr10:89618790..89627859-chr10:90143252..90153362,36	MCF-7	breast:

Variant related genes	Relation type
ENSG00000171862	Chromatin interaction
ENSG00000227268	Chromatin interaction

Extended variants
information (count: 47 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs11202705	0.88[JPT][hapmap]
rs11202722	0.88[JPT][hapmap]
rs11202726	0.94[JPT][hapmap]
rs11202731	0.81[ASN][1000 genomes]
rs11202734	1.00[CEU][hapmap];0.82[CHB][hapmap];0.88[JPT][hapmap];0.92[YRI][hapmap];0.82[AFR][1000 genomes];0.97[AMR][1000 genomes];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12217988	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.94[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.92[YRI][hapmap];0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12219831	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12220632	1.00[CEU][hapmap];0.81[CHB][hapmap];0.86[JPT][hapmap];0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12221213	0.90[CHD][hapmap];0.88[JPT][hapmap]
rs12569922	0.93[JPT][hapmap]
rs12572813	0.90[CHD][hapmap];0.88[JPT][hapmap]
rs1426617	0.82[CHD][hapmap];0.88[JPT][hapmap]
rs1582223	0.98[AFR][1000 genomes];0.80[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1582224	0.91[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1613409	0.92[CEU][hapmap];0.82[CHB][hapmap];0.88[JPT][hapmap];0.92[YRI][hapmap];0.97[AMR][1000 genomes];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1648512	0.82[CHB][hapmap];0.95[CHD][hapmap];0.88[JPT][hapmap];0.81[ASN][1000 genomes]
rs1648523	0.91[CEU][hapmap];0.81[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs17111200	0.90[CHD][hapmap];0.88[JPT][hapmap]
rs1774970	0.91[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.80[AFR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1774971	1.00[CEU][hapmap];0.82[CHB][hapmap];0.87[JPT][hapmap];0.92[YRI][hapmap];0.80[AFR][1000 genomes];0.80[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2241515	0.88[JPT][hapmap]
rs3740279	0.82[CHB][hapmap];0.95[CHD][hapmap];0.88[JPT][hapmap];0.82[ASN][1000 genomes]
rs3781201	0.87[CHD][hapmap];0.88[JPT][hapmap]
rs57949777	0.96[AFR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs59184458	0.84[AFR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs59482232	0.84[AFR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs59513062	0.80[ASN][1000 genomes]
rs61260851	0.84[AFR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7073755	0.91[CHB][hapmap];0.88[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7075138	0.84[AFR][1000 genomes];0.80[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7097606	0.91[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.94[JPT][hapmap];1.00[TSI][hapmap];0.92[YRI][hapmap];0.84[AFR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs74149712	0.84[AFR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs74149714	0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs74149715	0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs792224	0.88[ASN][1000 genomes]
rs792225	0.82[CHB][hapmap];0.94[JPT][hapmap];0.81[ASN][1000 genomes]
rs792228	0.82[ASN][1000 genomes]
rs792229	0.90[ASN][1000 genomes]
rs792234	0.84[YRI][hapmap]
rs796945	0.92[YRI][hapmap]
rs880794	0.88[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv895879	chr10:90015725-90219298	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
2	nsv482385	chr10:90066140-90259751	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
3	nsv948664	chr10:90076715-90517150	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
4	nsv1054984	chr10:90122512-90278038	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
5	nsv1050587	chr10:90146582-90272627	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
6	nsv540739	chr10:90146582-90272627	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:86 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:90144600-90148200	Flanking Active TSS	Dnd41	blood
2	chr10:90144600-90149000	Enhancers	Small Intestine	intestine
3	chr10:90144800-90148200	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
4	chr10:90144800-90148600	Enhancers	Breast Myoepithelial Primary Cells	Breast
5	chr10:90144800-90149600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
6	chr10:90145000-90147600	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
7	chr10:90145200-90147400	Flanking Active TSS	Primary B cells from cord blood	blood
8	chr10:90145200-90147400	Flanking Active TSS	Primary T cells from cord blood	blood
9	chr10:90145200-90147600	Enhancers	ES-I3 Cell Line	embryonic stem cell
10	chr10:90145200-90147600	Enhancers	iPS-15b Cell Line	embryonic stem cell
11	chr10:90145200-90147600	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
12	chr10:90145200-90147600	Enhancers	Fetal Muscle Leg	muscle
13	chr10:90145200-90147600	Flanking Active TSS	Fetal Thymus	thymus
14	chr10:90145400-90147400	Flanking Active TSS	Rectal Mucosa Donor 31	rectum
15	chr10:90145400-90147400	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
16	chr10:90145400-90147600	Enhancers	NHLF	lung
17	chr10:90145400-90147800	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
18	chr10:90145600-90147400	Flanking Active TSS	Fetal Kidney	kidney
19	chr10:90145600-90147800	Enhancers	Cortex derived primary cultured neurospheres	brain
20	chr10:90145800-90147400	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
21	chr10:90145800-90147400	Active TSS	Stomach Smooth Muscle	stomach
22	chr10:90145800-90147600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
23	chr10:90145800-90147600	Enhancers	NH-A	brain
24	chr10:90145800-90148000	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
25	chr10:90145800-90149200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
26	chr10:90146000-90147800	Enhancers	Primary neutrophils fromperipheralblood	blood
27	chr10:90146000-90147800	Flanking Active TSS	GM12878-XiMat	blood
28	chr10:90146000-90149000	Enhancers	Fetal Heart	heart
29	chr10:90146200-90147400	Enhancers	HUES64 Cell Line	embryonic stem cell
30	chr10:90146200-90147400	Flanking Active TSS	Primary T helper memory cells from peripheral blood 1	blood
31	chr10:90146200-90147400	Flanking Active TSS	Rectal Mucosa Donor 29	rectum
32	chr10:90146200-90147600	Enhancers	HUES48 Cell Line	embryonic stem cell
33	chr10:90146200-90149000	Enhancers	Primary T cells fromperipheralblood	blood
34	chr10:90146200-90150000	Enhancers	Primary T helper cells fromperipheralblood	blood
35	chr10:90146200-90150200	Enhancers	Primary T helper naive cells from peripheral blood	blood
36	chr10:90146400-90147600	Enhancers	HUVEC	blood vessel
37	chr10:90146400-90147800	Enhancers	Hela-S3	cervix
38	chr10:90146400-90148000	Active TSS	Fetal Brain Male	brain
39	chr10:90146400-90148800	Enhancers	Sigmoid Colon	Sigmoid Colon
40	chr10:90146400-90149800	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
41	chr10:90146600-90147400	Active TSS	Brain Anterior Caudate	brain
42	chr10:90146600-90147400	Active TSS	Duodenum Smooth Muscle	Duodenum
43	chr10:90146600-90147600	Active TSS	Brain Inferior Temporal Lobe	brain
44	chr10:90146600-90148200	Enhancers	Skeletal Muscle Female	skeletal muscle
45	chr10:90146600-90148400	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
46	chr10:90146600-90149800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
47	chr10:90146800-90147400	Active TSS	Liver	Liver
48	chr10:90146800-90147400	Active TSS	Fetal Brain Female	brain
49	chr10:90146800-90147600	Enhancers	H1 Cell Line	embryonic stem cell
50	chr10:90146800-90147600	Active TSS	Pancreatic Islets	Pancreatic Islet

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