Variant report

Variant	rs134688
Chromosome Location	chr22:29511517-29511518
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr22:29468837..29470571-chr22:29509772..29512355,2	K562	blood:
2	chr22:29508205..29511663-chr22:29545622..29548558,3	K562	blood:

Variant related genes	Relation type
ENSG00000183762	Chromatin interaction

Extended variants
information (count: 40 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs126077	0.88[CEU][hapmap];0.93[GIH][hapmap];0.92[JPT][hapmap];0.84[MEX][hapmap];0.98[TSI][hapmap];0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs134566	0.82[EUR][1000 genomes]
rs134570	0.82[EUR][1000 genomes]
rs134581	0.81[EUR][1000 genomes]
rs134583	0.89[CEU][hapmap];0.88[MEX][hapmap];0.93[TSI][hapmap];0.81[EUR][1000 genomes]
rs134585	0.96[CEU][hapmap];0.88[MEX][hapmap];0.93[TSI][hapmap];0.81[EUR][1000 genomes]
rs134587	0.81[EUR][1000 genomes]
rs134589	0.84[EUR][1000 genomes]
rs134590	0.84[EUR][1000 genomes]
rs134591	0.96[CEU][hapmap];0.84[MEX][hapmap];0.95[TSI][hapmap];0.84[EUR][1000 genomes]
rs134597	0.89[CEU][hapmap];0.82[EUR][1000 genomes]
rs134614	0.86[EUR][1000 genomes]
rs134615	0.92[CEU][hapmap];0.86[EUR][1000 genomes]
rs134627	0.87[EUR][1000 genomes]
rs134642	0.87[EUR][1000 genomes]
rs134646	0.87[EUR][1000 genomes]
rs134647	0.96[CEU][hapmap];0.87[EUR][1000 genomes]
rs134649	0.95[CEU][hapmap];0.87[EUR][1000 genomes]
rs134651	0.96[CEU][hapmap];0.88[MEX][hapmap];0.98[TSI][hapmap];0.87[EUR][1000 genomes]
rs134652	0.87[EUR][1000 genomes]
rs134655	0.81[EUR][1000 genomes]
rs134665	0.92[CEU][hapmap];0.88[MEX][hapmap];0.95[TSI][hapmap];0.94[EUR][1000 genomes]
rs134678	0.92[CEU][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.88[MEX][hapmap];0.98[TSI][hapmap];0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs134679	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs134680	0.81[AMR][1000 genomes];0.99[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs134681	0.99[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs134683	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs134684	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs134686	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs134689	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs134690	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs134691	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1978046	0.95[EUR][1000 genomes]
rs2049937	0.87[EUR][1000 genomes]
rs2049938	0.87[EUR][1000 genomes]
rs4823015	0.93[EUR][1000 genomes]
rs5752867	1.00[GIH][hapmap];0.85[TSI][hapmap]
rs5752868	0.93[GIH][hapmap];0.85[TSI][hapmap]
rs5752870	0.88[CEU][hapmap];0.91[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv531586	chr22:29252132-29902266	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	46 gene(s)	inside rSNPs	diseases

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs134688	ZNRF3	cis	cerebellum	SCAN
rs134688	KREMEN1	cis	Heart Left Ventricle	GTEx
rs134688	CHEK2	cis	lymphoblastoid	seeQTL
rs134688	SLC35E4	cis	cerebellum	SCAN

Chromatin state (count:66 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr22:29483400-29550200	Weak transcription	Rectal Smooth Muscle	rectum
2	chr22:29486600-29519000	Weak transcription	Fetal Brain Male	brain
3	chr22:29488400-29521200	Weak transcription	Lung	lung
4	chr22:29490000-29514000	Weak transcription	Stomach Smooth Muscle	stomach
5	chr22:29490400-29539800	Weak transcription	Psoas Muscle	Psoas
6	chr22:29491200-29521200	Weak transcription	Colonic Mucosa	Colon
7	chr22:29491600-29522200	Weak transcription	Liver	Liver
8	chr22:29493200-29511600	Weak transcription	Gastric	stomach
9	chr22:29493200-29521000	Weak transcription	Skeletal Muscle Female	skeletal muscle
10	chr22:29493200-29521200	Weak transcription	Pancreas	Pancrea
11	chr22:29493200-29536400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
12	chr22:29493400-29516400	Weak transcription	Skeletal Muscle Male	skeletal muscle
13	chr22:29493800-29511600	Weak transcription	Fetal Heart	heart
14	chr22:29495200-29516600	Weak transcription	Esophagus	oesophagus
15	chr22:29504800-29521800	Weak transcription	NHEK	skin
16	chr22:29505000-29514000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
17	chr22:29505000-29521000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
18	chr22:29505800-29511600	Weak transcription	Small Intestine	intestine
19	chr22:29505800-29533000	Weak transcription	Placenta Amnion	Placenta Amnion
20	chr22:29506000-29514000	Weak transcription	Duodenum Mucosa	Duodenum
21	chr22:29506000-29521000	Weak transcription	Rectal Mucosa Donor 31	rectum
22	chr22:29506200-29512200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
23	chr22:29506400-29511600	Weak transcription	Ovary	ovary
24	chr22:29506400-29511800	Weak transcription	Sigmoid Colon	Sigmoid Colon
25	chr22:29506400-29513800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
26	chr22:29506400-29514000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
27	chr22:29506400-29516200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
28	chr22:29506400-29516400	Weak transcription	Adipose Nuclei	Adipose
29	chr22:29506400-29516400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
30	chr22:29506400-29520000	Weak transcription	Fetal Thymus	thymus
31	chr22:29506400-29521000	Weak transcription	Right Ventricle	heart
32	chr22:29506400-29522200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
33	chr22:29506400-29522400	Weak transcription	Rectal Mucosa Donor 29	rectum
34	chr22:29506600-29511800	Weak transcription	Stomach Mucosa	stomach
35	chr22:29506600-29514000	Weak transcription	Fetal Muscle Trunk	muscle
36	chr22:29507000-29512200	Weak transcription	Fetal Kidney	kidney
37	chr22:29507000-29520200	Weak transcription	Thymus	Thymus
38	chr22:29507200-29511800	Weak transcription	Right Atrium	heart
39	chr22:29508200-29537200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
40	chr22:29509000-29514000	Weak transcription	Placenta	Placenta
41	chr22:29509200-29512200	Strong transcription	Dnd41	blood
42	chr22:29509400-29524400	Weak transcription	NHDF-Ad	bronchial
43	chr22:29509400-29525000	Weak transcription	Osteobl	bone
44	chr22:29509600-29513800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
45	chr22:29509800-29516400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
46	chr22:29510000-29511800	Weak transcription	Fetal Lung	lung
47	chr22:29510000-29512200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
48	chr22:29510000-29516200	Weak transcription	Brain Angular Gyrus	brain
49	chr22:29510000-29516400	Weak transcription	Brain Inferior Temporal Lobe	brain
50	chr22:29510000-29519800	Weak transcription	Breast Myoepithelial Primary Cells	Breast

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