Variant report

Variant	rs7618007
Chromosome Location	chr3:56728899-56728900
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:56708568..56710932-chr3:56727678..56729297,2	MCF-7	breast:
2	chr3:56715572..56717883-chr3:56727378..56729582,3	MCF-7	breast:
3	chr3:56716408..56719347-chr3:56726422..56729753,3	K562	blood:

Variant related genes	Relation type
ENSG00000163946	Chromatin interaction

Extended variants
information (count: 41 )
Associated
traits (count: 2 )

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

rs_ID	r²[population]
rs10049468	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11130537	0.90[AFR][1000 genomes];0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11130540	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11130541	0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1565373	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1565375	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1844477	0.81[AMR][1000 genomes]
rs2317244	0.84[EUR][1000 genomes]
rs2317252	0.90[AFR][1000 genomes];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs4234393	0.90[AFR][1000 genomes];0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4681734	0.88[AFR][1000 genomes];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4681740	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4681933	0.84[EUR][1000 genomes]
rs4681945	0.90[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs4681964	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4681980	0.90[AFR][1000 genomes];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4681994	0.90[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4682000	0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs62251242	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6445801	0.80[EUR][1000 genomes]
rs6445803	0.85[EUR][1000 genomes]
rs6445804	0.83[EUR][1000 genomes]
rs6445810	0.90[AFR][1000 genomes];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6445814	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6773823	0.81[AMR][1000 genomes]
rs6773931	0.81[AMR][1000 genomes]
rs6787227	0.90[AFR][1000 genomes];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6802498	0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6809499	0.85[AFR][1000 genomes];0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7619465	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7620259	0.84[EUR][1000 genomes]
rs7631662	0.90[AFR][1000 genomes];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7642389	0.85[AFR][1000 genomes];0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs9311614	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs9809309	0.81[AFR][1000 genomes];0.80[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9835332	0.86[EUR][1000 genomes]
rs9839065	0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9851653	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9858568	0.84[EUR][1000 genomes]
rs9875257	0.90[AFR][1000 genomes];0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs9878373	0.86[EUR][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs7618007	ARHGEF3	Cis_1M	lymphoblastoid	RTeQTL
rs7618007	CCDC66	cis	Thyroid	GTEx

Chromatin state (count:31 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:56725800-56734000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
2	chr3:56726000-56734000	Weak transcription	NHEK	skin
3	chr3:56726200-56729200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
4	chr3:56726400-56729800	Enhancers	Fetal Thymus	thymus
5	chr3:56726600-56729600	Enhancers	Primary B cells from peripheral blood	blood
6	chr3:56726600-56730000	Enhancers	Primary monocytes fromperipheralblood	blood
7	chr3:56726800-56729600	Enhancers	Primary neutrophils fromperipheralblood	blood
8	chr3:56726800-56729600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
9	chr3:56727000-56729600	Enhancers	Primary hematopoietic stem cells	blood
10	chr3:56727200-56729600	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
11	chr3:56727200-56729800	Enhancers	Thymus	Thymus
12	chr3:56727200-56730000	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
13	chr3:56727600-56729600	Enhancers	Primary B cells from cord blood	blood
14	chr3:56727600-56729600	Enhancers	GM12878-XiMat	blood
15	chr3:56727600-56729800	Enhancers	Primary T regulatory cells fromperipheralblood	blood
16	chr3:56727600-56730000	Enhancers	Primary T cells fromperipheralblood	blood
17	chr3:56727600-56730400	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
18	chr3:56727600-56731000	Enhancers	Primary hematopoietic stem cells short term culture	blood
19	chr3:56727600-56731200	Enhancers	Primary T helper cells fromperipheralblood	blood
20	chr3:56727600-56731200	Enhancers	Primary T killer naive cells fromperipheralblood	blood
21	chr3:56727800-56729400	Enhancers	Primary T killer memory cells from peripheral blood	blood
22	chr3:56727800-56731000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
23	chr3:56727800-56731200	Enhancers	Primary T helper naive cells from peripheral blood	blood
24	chr3:56728000-56730400	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
25	chr3:56728000-56733000	Weak transcription	Placenta	Placenta
26	chr3:56728200-56729800	Enhancers	Dnd41	blood
27	chr3:56728200-56730000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
28	chr3:56728200-56730000	Enhancers	Monocytes-CD14+_RO01746	blood
29	chr3:56728200-56731000	Enhancers	Primary T helper naive cells fromperipheralblood	blood
30	chr3:56728600-56729200	Flanking Active TSS	Primary T cells from cord blood	blood
31	chr3:56728800-56729200	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--

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