Variant report

Variant	rs2296966
Chromosome Location	chr10:97074424-97074425
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:97073155..97074833-chr10:97074893..97076970,2	MCF-7	breast:
2	chr10:97071047..97076253-chr10:97076532..97079541,6	K562	blood:
3	chr10:97071603..97074212-chr10:97074276..97076848,4	K562	blood:
4	chr10:97049954..97053726-chr10:97073824..97076518,4	MCF-7	breast:
5	chr10:97072681..97075198-chr10:97078995..97080979,2	MCF-7	breast:
6	chr10:97048574..97053908-chr10:97072815..97077424,5	K562	blood:

Variant related genes	Relation type
ENSG00000107438	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs10748630	0.84[CHD][hapmap]
rs10882581	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10882584	1.00[CEU][hapmap];0.91[CHB][hapmap];0.93[CHD][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];0.88[MEX][hapmap];0.84[TSI][hapmap];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10882585	1.00[CEU][hapmap];0.92[EUR][1000 genomes]
rs10882586	1.00[CEU][hapmap];0.85[CHB][hapmap];0.80[JPT][hapmap];0.82[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11188272	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.85[MKK][hapmap];0.84[TSI][hapmap];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11188276	1.00[CEU][hapmap];0.91[CHB][hapmap];0.93[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.88[MEX][hapmap];0.85[MKK][hapmap];0.84[TSI][hapmap];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11188279	0.90[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs11188280	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs11188286	1.00[EUR][1000 genomes]
rs11188292	0.90[EUR][1000 genomes]
rs11188300	1.00[CEU][hapmap];0.84[CHB][hapmap];0.84[JPT][hapmap];0.94[EUR][1000 genomes]
rs1132810	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11813979	0.90[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12217326	0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12219964	1.00[CEU][hapmap];0.91[CHB][hapmap];0.86[JPT][hapmap];0.90[EUR][1000 genomes]
rs12220134	1.00[CEU][hapmap];0.91[CHB][hapmap];0.81[CHD][hapmap];0.82[GIH][hapmap];0.86[JPT][hapmap];0.88[MEX][hapmap];0.85[MKK][hapmap];0.84[TSI][hapmap];0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12572852	0.90[EUR][1000 genomes]
rs14420	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.88[MEX][hapmap];1.00[TSI][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1960067	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2274631	1.00[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2274632	1.00[CEU][hapmap];0.85[CHB][hapmap];0.90[JPT][hapmap];0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs35338286	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs3740510	1.00[CEU][hapmap];0.91[CHB][hapmap];0.93[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.88[MEX][hapmap];0.85[MKK][hapmap];0.84[TSI][hapmap];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3814155	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3818589	1.00[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4918927	1.00[YRI][hapmap]
rs57682907	0.80[EUR][1000 genomes]
rs58783242	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6583993	1.00[CEU][hapmap];0.85[CHB][hapmap];0.95[JPT][hapmap];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs67857865	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7069281	1.00[CEU][hapmap];0.86[CHB][hapmap];0.86[JPT][hapmap];0.82[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7069741	1.00[YRI][hapmap]
rs7081119	0.85[ASN][1000 genomes]
rs7085208	1.00[CEU][hapmap]
rs7085990	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7088743	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7088852	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7090345	1.00[CEU][hapmap];0.85[JPT][hapmap];1.00[YRI][hapmap];0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7094119	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7096788	1.00[CEU][hapmap];0.90[CHB][hapmap];0.90[CHD][hapmap];0.91[GIH][hapmap];0.95[JPT][hapmap];0.88[MEX][hapmap];0.84[TSI][hapmap];0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs72822521	0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs72822522	0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7898995	0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9313	0.86[CEU][hapmap];0.91[CHB][hapmap];0.90[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];0.93[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	nsv529726	chr10:96632494-97106315	Strong transcription Enhancers Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
2	esv15160	chr10:96942869-97074756	Bivalent Enhancer Active TSS Strong transcription Enhancers Weak transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:77 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:97064600-97078200	Weak transcription	Colonic Mucosa	Colon
2	chr10:97069000-97075600	Enhancers	K562	blood
3	chr10:97069200-97087000	Weak transcription	HSMM	muscle
4	chr10:97069800-97075200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
5	chr10:97070400-97139600	Weak transcription	Fetal Brain Male	brain
6	chr10:97070800-97085800	Weak transcription	Small Intestine	intestine
7	chr10:97070800-97094200	Weak transcription	Rectal Mucosa Donor 31	rectum
8	chr10:97071000-97075200	Weak transcription	Gastric	stomach
9	chr10:97071000-97086000	Weak transcription	Sigmoid Colon	Sigmoid Colon
10	chr10:97071000-97087000	Strong transcription	Breast Myoepithelial Primary Cells	Breast
11	chr10:97071000-97087000	Weak transcription	Esophagus	oesophagus
12	chr10:97071000-97095800	Weak transcription	Pancreas	Pancrea
13	chr10:97071200-97098800	Weak transcription	Brain Substantia Nigra	brain
14	chr10:97072000-97087000	Strong transcription	Adipose Nuclei	Adipose
15	chr10:97072200-97074600	Strong transcription	Placenta	Placenta
16	chr10:97072200-97075400	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
17	chr10:97072400-97075400	Strong transcription	Fetal Brain Female	brain
18	chr10:97072400-97075800	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
19	chr10:97072400-97078400	Weak transcription	Fetal Lung	lung
20	chr10:97072600-97074600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
21	chr10:97072600-97074800	Strong transcription	Liver	Liver
22	chr10:97072600-97075200	Enhancers	Psoas Muscle	Psoas
23	chr10:97072600-97075600	Strong transcription	Brain Anterior Caudate	brain
24	chr10:97072600-97075600	Genic enhancers	Duodenum Smooth Muscle	Duodenum
25	chr10:97072600-97075600	Genic enhancers	Stomach Smooth Muscle	stomach
26	chr10:97072600-97076000	Genic enhancers	Colon Smooth Muscle	Colon
27	chr10:97072600-97077200	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
28	chr10:97072600-97077200	Genic enhancers	Rectal Smooth Muscle	rectum
29	chr10:97072800-97074600	Genic enhancers	Aorta	Aorta
30	chr10:97072800-97074600	Enhancers	Right Atrium	heart
31	chr10:97072800-97075400	Genic enhancers	Skeletal Muscle Female	skeletal muscle
32	chr10:97072800-97076400	Strong transcription	Brain Dorsolateral Prefrontal Cortex	brain
33	chr10:97072800-97078200	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
34	chr10:97073000-97074600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
35	chr10:97073000-97075000	Strong transcription	Fetal Intestine Large	intestine
36	chr10:97073000-97075200	Genic enhancers	Skeletal Muscle Male	skeletal muscle
37	chr10:97073000-97075400	Strong transcription	Foreskin Melanocyte Primary Cells skin01	Skin
38	chr10:97073000-97076800	Genic enhancers	Left Ventricle	heart
39	chr10:97073000-97077600	Strong transcription	Fetal Stomach	stomach
40	chr10:97073000-97085000	Weak transcription	Duodenum Mucosa	Duodenum
41	chr10:97073000-97085600	Weak transcription	Stomach Mucosa	stomach
42	chr10:97073200-97074800	Strong transcription	Fetal Muscle Leg	muscle
43	chr10:97073200-97075600	Strong transcription	Brain Germinal Matrix	brain
44	chr10:97073200-97080400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
45	chr10:97073400-97074600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
46	chr10:97073400-97074800	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
47	chr10:97073400-97075000	Strong transcription	Fetal Muscle Trunk	muscle
48	chr10:97073400-97075200	Strong transcription	Ovary	ovary
49	chr10:97073400-97081000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
50	chr10:97073400-97084200	Weak transcription	H9 Cell Line	embryonic stem cell

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