Variant report

Variant	rs7088886
Chromosome Location	chr10:61576850-61576851
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	CCNT2	chr10:61576757-61576873	K562	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:61576666..61579200-chr10:61664760..61666510,2	K562	blood:

Variant related genes	Relation type
CCDC6	TF binding region
ENSG00000108091	Chromatin interaction

Extended variants
information (count: 70 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:70)

rs_ID	r²[population]
rs10458645	0.92[CEU][hapmap];0.90[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.95[TSI][hapmap];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10509112	0.85[CHD][hapmap]
rs10761414	0.87[GIH][hapmap]
rs10761415	0.85[GIH][hapmap]
rs10821604	0.96[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10821605	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10821606	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10821607	0.96[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10994021	0.80[JPT][hapmap]
rs10994026	0.85[JPT][hapmap]
rs10994027	0.85[JPT][hapmap]
rs10994030	0.85[JPT][hapmap]
rs10994031	0.85[JPT][hapmap]
rs1149660	0.81[JPT][hapmap]
rs1171786	0.87[CHD][hapmap]
rs12243564	0.89[CHD][hapmap];0.85[GIH][hapmap];0.85[JPT][hapmap];0.84[TSI][hapmap];0.82[EUR][1000 genomes]
rs1621496	0.85[JPT][hapmap]
rs1664256	0.85[JPT][hapmap]
rs1664284	0.92[CHD][hapmap];0.90[JPT][hapmap]
rs1664285	0.90[JPT][hapmap]
rs1684901	0.80[CHB][hapmap];0.90[JPT][hapmap]
rs16914233	0.85[JPT][hapmap]
rs1709342	0.81[JPT][hapmap]
rs1709343	0.81[JPT][hapmap]
rs1709345	0.94[CHB][hapmap];0.94[JPT][hapmap];0.91[ASN][1000 genomes]
rs1871637	0.92[CEU][hapmap];0.95[JPT][hapmap];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1871638	0.92[CEU][hapmap];0.90[CHD][hapmap];0.85[GIH][hapmap];0.95[JPT][hapmap];0.91[MEX][hapmap];0.89[TSI][hapmap];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2120989	0.96[CEU][hapmap];0.95[JPT][hapmap];0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2120990	0.96[CEU][hapmap];0.95[JPT][hapmap];0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2271562	0.83[JPT][hapmap]
rs2393572	0.89[GIH][hapmap]
rs2440926	0.81[JPT][hapmap]
rs2458661	0.95[CHB][hapmap];0.95[CHD][hapmap];0.85[GIH][hapmap];0.95[JPT][hapmap];0.91[TSI][hapmap];0.91[ASN][1000 genomes]
rs2458663	0.90[CHD][hapmap];0.90[JPT][hapmap]
rs3793878	0.90[JPT][hapmap];0.84[ASN][1000 genomes]
rs3844161	0.96[CEU][hapmap];0.92[CHD][hapmap];0.89[GIH][hapmap];0.95[JPT][hapmap];0.91[MEX][hapmap];0.89[TSI][hapmap];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs3851247	0.90[CHD][hapmap];0.95[JPT][hapmap];0.81[ASN][1000 genomes]
rs3851248	0.80[ASN][1000 genomes]
rs3862861	0.80[ASN][1000 genomes]
rs3999569	0.95[JPT][hapmap];0.80[ASN][1000 genomes]
rs3999570	0.90[CHD][hapmap];0.95[JPT][hapmap];0.84[TSI][hapmap];0.80[ASN][1000 genomes]
rs4948244	0.84[CHD][hapmap]
rs4948372	0.90[CHD][hapmap];0.95[JPT][hapmap];0.84[TSI][hapmap];0.80[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs4948373	0.80[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs4948374	0.95[CHB][hapmap];0.95[CHD][hapmap];0.87[GIH][hapmap];1.00[JPT][hapmap];0.91[TSI][hapmap];0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4948375	0.94[JPT][hapmap];0.80[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs6479653	0.85[JPT][hapmap]
rs6479654	0.92[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6479659	0.80[ASN][1000 genomes]
rs6479660	0.81[ASN][1000 genomes]
rs6479661	0.95[JPT][hapmap];0.80[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs6479662	0.80[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs7068247	0.80[ASN][1000 genomes]
rs7070800	0.81[EUR][1000 genomes]
rs7074685	0.81[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs7075215	0.83[GIH][hapmap]
rs7078533	0.82[JPT][hapmap]
rs7079228	0.90[CHD][hapmap];0.95[JPT][hapmap];0.84[TSI][hapmap]
rs7079588	0.85[JPT][hapmap]
rs7088755	0.85[JPT][hapmap]
rs7088808	0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7092259	0.85[JPT][hapmap]
rs7099368	0.87[GIH][hapmap]
rs7894842	0.85[GIH][hapmap]
rs7908517	0.92[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7910256	0.85[JPT][hapmap]
rs7920049	0.85[JPT][hapmap]
rs7920403	0.90[CHD][hapmap];0.95[JPT][hapmap];0.86[MEX][hapmap];0.82[TSI][hapmap]
rs9663498	0.85[CHB][hapmap];0.92[CHD][hapmap];0.87[GIH][hapmap];0.95[JPT][hapmap];0.91[TSI][hapmap];0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9664183	0.95[JPT][hapmap]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7088886	EGR2	cis	parietal	SCAN

Chromatin state (count:122 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:61537600-61582800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr10:61549600-61579600	Strong transcription	Primary B cells from cord blood	blood
3	chr10:61556000-61583800	Strong transcription	Primary B cells from peripheral blood	blood
4	chr10:61563600-61577600	Weak transcription	Right Atrium	heart
5	chr10:61565400-61586600	Weak transcription	Pancreatic Islets	Pancreatic Islet
6	chr10:61567000-61593600	Weak transcription	Small Intestine	intestine
7	chr10:61567600-61579200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
8	chr10:61568200-61582400	Weak transcription	Psoas Muscle	Psoas
9	chr10:61571000-61591200	Weak transcription	NHEK	skin
10	chr10:61571200-61577600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
11	chr10:61571400-61579000	Weak transcription	Brain Germinal Matrix	brain
12	chr10:61571400-61628000	Weak transcription	Spleen	Spleen
13	chr10:61571600-61577000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
14	chr10:61571600-61577200	Weak transcription	HSMMtube	muscle
15	chr10:61571600-61577400	Weak transcription	H9 Cell Line	embryonic stem cell
16	chr10:61571600-61577400	Weak transcription	Brain Angular Gyrus	brain
17	chr10:61571600-61577400	Weak transcription	Brain Inferior Temporal Lobe	brain
18	chr10:61571600-61577400	Weak transcription	Right Ventricle	heart
19	chr10:61571600-61577600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
20	chr10:61571600-61577600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
21	chr10:61571600-61577600	Weak transcription	Gastric	stomach
22	chr10:61571600-61577600	Weak transcription	Rectal Smooth Muscle	rectum
23	chr10:61571600-61577800	Weak transcription	Aorta	Aorta
24	chr10:61571600-61577800	Weak transcription	Thymus	Thymus
25	chr10:61571600-61579200	Weak transcription	Fetal Brain Male	brain
26	chr10:61571600-61579400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
27	chr10:61571600-61579400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
28	chr10:61571600-61579800	Weak transcription	Brain Substantia Nigra	brain
29	chr10:61571600-61580600	Weak transcription	Colon Smooth Muscle	Colon
30	chr10:61571600-61580800	Weak transcription	Brain Cingulate Gyrus	brain
31	chr10:61571600-61582800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
32	chr10:61571600-61583600	Weak transcription	GM12878-XiMat	blood
33	chr10:61571600-61585400	Weak transcription	Duodenum Smooth Muscle	Duodenum
34	chr10:61571600-61585800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
35	chr10:61571600-61585800	Weak transcription	Lung	lung
36	chr10:61571600-61585800	Weak transcription	Skeletal Muscle Male	skeletal muscle
37	chr10:61571600-61595800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
38	chr10:61571600-61598400	Weak transcription	Fetal Brain Female	brain
39	chr10:61571600-61609200	Weak transcription	NHLF	lung
40	chr10:61571600-61616000	Weak transcription	Fetal Kidney	kidney
41	chr10:61571800-61577400	Weak transcription	HSMM	muscle
42	chr10:61571800-61583000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
43	chr10:61572000-61577200	Weak transcription	A549	lung
44	chr10:61572000-61577600	Weak transcription	Skeletal Muscle Female	skeletal muscle
45	chr10:61572000-61577600	Weak transcription	NHDF-Ad	bronchial
46	chr10:61572000-61615000	Weak transcription	Colonic Mucosa	Colon
47	chr10:61572200-61585200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
48	chr10:61572400-61579200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
49	chr10:61572400-61579400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
50	chr10:61572400-61589200	Weak transcription	K562	blood

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