Variant report

Variant	rs7623659
Chromosome Location	chr3:49414791-49414792
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 76 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:76)

rs_ID	r²[population]
rs1050450	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10640	0.89[MEX][hapmap];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11706370	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11711485	0.89[MEX][hapmap];0.89[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11711536	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11712569	0.80[AMR][1000 genomes]
rs11713474	0.81[AMR][1000 genomes]
rs11715915	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs11716974	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11719996	0.83[AMR][1000 genomes]
rs11922013	0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs12330269	0.83[AMR][1000 genomes]
rs13079082	0.82[AMR][1000 genomes]
rs13079643	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs13086611	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs13087851	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13090388	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17080528	0.93[ASW][hapmap];0.95[LWK][hapmap];0.94[MEX][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17595772	0.94[ASN][1000 genomes]
rs17650792	0.94[ASN][1000 genomes]
rs1800668	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1801143	0.93[ASW][hapmap];0.88[LWK][hapmap];0.94[MEX][hapmap];0.82[AMR][1000 genomes]
rs1987628	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2117939	0.90[ASN][1000 genomes]
rs2878298	0.94[ASN][1000 genomes]
rs34196454	0.80[AMR][1000 genomes]
rs34293138	0.83[AMR][1000 genomes]
rs34363169	0.83[AMR][1000 genomes]
rs34588335	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35115732	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs35169793	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35261698	0.85[AMR][1000 genomes]
rs3811697	0.93[ASW][hapmap];0.88[LWK][hapmap];0.89[MEX][hapmap];0.81[AMR][1000 genomes]
rs3811699	0.93[ASW][hapmap];0.95[LWK][hapmap];0.94[MEX][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3926569	0.82[AMR][1000 genomes]
rs4625	0.93[ASW][hapmap];0.88[LWK][hapmap];0.94[MEX][hapmap];0.82[AMR][1000 genomes]
rs4955412	0.94[ASN][1000 genomes]
rs4955438	0.82[ASN][1000 genomes]
rs62259939	0.94[ASN][1000 genomes]
rs62259942	0.83[ASN][1000 genomes]
rs6446264	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6446272	0.93[ASW][hapmap];0.86[LWK][hapmap];0.94[MEX][hapmap];0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6446277	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs67216675	0.89[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs67485053	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6766131	0.93[ASW][hapmap];0.88[LWK][hapmap];0.94[MEX][hapmap];0.85[AMR][1000 genomes]
rs6766581	0.83[AMR][1000 genomes]
rs6779524	0.93[ASW][hapmap];0.88[LWK][hapmap];0.94[MEX][hapmap];0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6792911	0.82[ASN][1000 genomes]
rs6793308	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6797664	0.83[AMR][1000 genomes]
rs6797765	0.94[ASN][1000 genomes]
rs6809216	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6997	0.93[ASW][hapmap];0.88[LWK][hapmap];0.94[MEX][hapmap];0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs71324962	0.84[AFR][1000 genomes];0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7373849	0.87[ASN][1000 genomes]
rs7621003	0.94[ASN][1000 genomes]
rs7622302	0.83[MEX][hapmap];0.81[AMR][1000 genomes]
rs7631908	0.88[ASN][1000 genomes]
rs7633271	0.82[AMR][1000 genomes]
rs7643586	0.82[ASN][1000 genomes]
rs7646366	0.89[MEX][hapmap];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7648841	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9814873	0.89[MEX][hapmap];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9818590	0.85[AMR][1000 genomes]
rs9821311	0.85[AMR][1000 genomes]
rs9827021	0.85[AMR][1000 genomes]
rs9837027	0.93[ASW][hapmap];0.88[LWK][hapmap];0.94[MEX][hapmap];0.81[AMR][1000 genomes]
rs9841110	0.89[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs9850072	0.83[AMR][1000 genomes]
rs9853683	0.89[MEX][hapmap];0.83[AMR][1000 genomes]
rs9858280	0.93[ASW][hapmap];0.88[LWK][hapmap];0.94[MEX][hapmap];0.81[AMR][1000 genomes]
rs9858418	0.82[AMR][1000 genomes]
rs9859556	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9871380	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9878943	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes]

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs7623659	IHPK2	Cis_1M	lymphoblastoid	RTeQTL
rs7623659	RBM6	Cis_1M	lymphoblastoid	RTeQTL
rs7623659	FAM212A	cis	Muscle Skeletal	GTEx

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:49396400-49418600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr3:49396800-49438800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr3:49397000-49415200	Strong transcription	Fetal Stomach	stomach
4	chr3:49397200-49423800	Weak transcription	Fetal Heart	heart
5	chr3:49397400-49416400	Strong transcription	Fetal Intestine Small	intestine
6	chr3:49397800-49415800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
7	chr3:49399000-49448000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr3:49401600-49415200	Strong transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr3:49406000-49416000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
10	chr3:49406000-49416000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
11	chr3:49406000-49445200	Weak transcription	Pancreatic Islets	Pancreatic Islet
12	chr3:49410600-49421800	Weak transcription	K562	blood
13	chr3:49411000-49416000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
14	chr3:49411000-49434600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
15	chr3:49411200-49418800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
16	chr3:49411200-49423200	Weak transcription	Primary hematopoietic stem cells	blood
17	chr3:49411200-49423800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
18	chr3:49411800-49417200	Weak transcription	Colon Smooth Muscle	Colon
19	chr3:49412200-49415800	Weak transcription	Stomach Mucosa	stomach
20	chr3:49412400-49415800	Weak transcription	Right Ventricle	heart
21	chr3:49412800-49415000	Weak transcription	Placenta Amnion	Placenta Amnion
22	chr3:49413000-49414800	Weak transcription	Gastric	stomach
23	chr3:49413000-49415000	Weak transcription	NHDF-Ad	bronchial
24	chr3:49413000-49415800	Weak transcription	Stomach Smooth Muscle	stomach
25	chr3:49413000-49417200	Weak transcription	Small Intestine	intestine
26	chr3:49413000-49418800	Weak transcription	Primary neutrophils fromperipheralblood	blood
27	chr3:49413000-49421600	Weak transcription	Rectal Smooth Muscle	rectum
28	chr3:49413000-49422000	Weak transcription	Pancreas	Pancrea
29	chr3:49413000-49423200	Weak transcription	Brain Anterior Caudate	brain
30	chr3:49413000-49423800	Weak transcription	HUVEC	blood vessel
31	chr3:49413200-49414800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
32	chr3:49413200-49414800	Weak transcription	Primary T helper cells fromperipheralblood	blood
33	chr3:49413200-49414800	Weak transcription	Skeletal Muscle Male	skeletal muscle
34	chr3:49413200-49415000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
35	chr3:49413200-49415000	Weak transcription	HMEC	breast
36	chr3:49413200-49415000	Weak transcription	HSMMtube	muscle
37	chr3:49413200-49415200	Weak transcription	Muscle Satellite Cultured Cells	--
38	chr3:49413200-49415200	Weak transcription	Adipose Nuclei	Adipose
39	chr3:49413200-49415200	Weak transcription	HSMM	muscle
40	chr3:49413200-49415400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
41	chr3:49413200-49415800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
42	chr3:49413200-49415800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
43	chr3:49413200-49415800	Weak transcription	Liver	Liver
44	chr3:49413200-49415800	Weak transcription	Brain Substantia Nigra	brain
45	chr3:49413200-49415800	Weak transcription	Rectal Mucosa Donor 29	rectum
46	chr3:49413200-49415800	Weak transcription	Skeletal Muscle Female	skeletal muscle
47	chr3:49413200-49416000	Weak transcription	H1 Cell Line	embryonic stem cell
48	chr3:49413200-49416000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
49	chr3:49413200-49416000	Weak transcription	Brain Inferior Temporal Lobe	brain
50	chr3:49413200-49416200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood

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