Variant report

Variant	rs701846
Chromosome Location	chr10:93871066-93871067
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:93870349..93872149-chr10:93874074..93876039,2	K562	blood:
2	chr10:93866014..93868686-chr10:93868973..93871759,2	K562	blood:

Extended variants
information (count: 51 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:46)

rs_ID	r²[population]
rs10748577	0.88[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap]
rs10786029	0.95[CHB][hapmap];0.97[CHD][hapmap];0.91[JPT][hapmap];0.88[ASN][1000 genomes]
rs10786031	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10786033	0.86[AMR][1000 genomes];0.80[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10882028	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.95[MEX][hapmap];0.87[MKK][hapmap];0.92[TSI][hapmap];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10882042	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes]
rs1099379	0.88[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];1.00[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];0.83[AFR][1000 genomes];0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11186914	0.88[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap]
rs11186915	0.88[CEU][hapmap];0.95[CHB][hapmap];0.93[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];0.90[TSI][hapmap]
rs1229578	0.95[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs1229579	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12415793	0.82[CEU][hapmap]
rs1622656	0.95[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs1711849	0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1971471	0.85[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs2254667	0.84[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap]
rs2767654	0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2771248	0.88[CEU][hapmap];0.95[CHB][hapmap];0.93[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];0.90[TSI][hapmap]
rs2798254	0.88[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap]
rs3781229	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs3824734	0.88[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.87[MKK][hapmap];0.92[TSI][hapmap];0.84[AMR][1000 genomes];0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4642988	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4933227	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.90[LWK][hapmap];0.87[MKK][hapmap];0.92[TSI][hapmap];0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4933228	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4933229	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4933720	0.88[CEU][hapmap];0.95[CHB][hapmap];0.93[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];0.87[MEX][hapmap];0.90[TSI][hapmap]
rs6583804	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs701844	0.80[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs7078559	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.95[MEX][hapmap];0.87[MKK][hapmap];0.92[TSI][hapmap];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7087501	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.95[MEX][hapmap];0.87[MKK][hapmap];0.92[TSI][hapmap];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7090737	0.95[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs7091853	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7908721	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7919699	0.86[ASN][1000 genomes]
rs7919840	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7920520	0.95[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs833385	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs855698	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs855699	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs855702	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.87[MKK][hapmap];1.00[TSI][hapmap];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs855703	0.85[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs855704	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs855706	0.86[ASN][1000 genomes]
rs855707	0.88[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs855708	0.95[ASN][1000 genomes]
rs855710	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1051226	chr10:93711296-93915586	Strong transcription Weak transcription Enhancers ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
2	nsv540745	chr10:93711296-93915586	Weak transcription Enhancers Bivalent Enhancer Strong transcription Genic enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
3	nsv895893	chr10:93747260-93875264	Strong transcription Weak transcription Active TSS Bivalent/Poised TSS Enhancers Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA target site	6 gene(s)	inside rSNPs	diseases
4	nsv975763	chr10:93822289-94105956	Enhancers Bivalent Enhancer Strong transcription Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
5	nsv1046258	chr10:93866969-94466106	Active TSS Strong transcription Weak transcription Flanking Bivalent TSS/Enh Enhancers Flanking Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	58 gene(s)	inside rSNPs	diseases

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs701846	RNLS	cis	cerebellum	SCAN
rs701846	TPBG	trans	lymphoblastoid	seeQTL
rs701846	RNLS	cis	parietal	SCAN
rs701846	TNKS2	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:93841200-93872400	Weak transcription	Spleen	Spleen
2	chr10:93841200-93881600	Weak transcription	Esophagus	oesophagus
3	chr10:93859200-93901400	Weak transcription	Primary B cells from cord blood	blood
4	chr10:93859400-93874800	Weak transcription	Fetal Intestine Large	intestine
5	chr10:93861000-93873600	Weak transcription	Rectal Mucosa Donor 31	rectum
6	chr10:93861400-93872600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
7	chr10:93861400-93879000	Weak transcription	Adipose Nuclei	Adipose
8	chr10:93862000-93874200	Weak transcription	Duodenum Mucosa	Duodenum
9	chr10:93862000-93881400	Weak transcription	Colon Smooth Muscle	Colon
10	chr10:93862000-93881400	Weak transcription	Stomach Smooth Muscle	stomach
11	chr10:93862000-93883200	Weak transcription	Fetal Stomach	stomach
12	chr10:93862800-93873200	Weak transcription	Fetal Muscle Leg	muscle
13	chr10:93863000-93878600	Weak transcription	Gastric	stomach
14	chr10:93863800-93879200	Weak transcription	GM12878-XiMat	blood
15	chr10:93863800-93881400	Weak transcription	Rectal Smooth Muscle	rectum
16	chr10:93863800-93881600	Weak transcription	Duodenum Smooth Muscle	Duodenum
17	chr10:93867400-93876200	Weak transcription	Brain Germinal Matrix	brain
18	chr10:93867400-93881800	Weak transcription	Stomach Mucosa	stomach
19	chr10:93867600-93872600	Weak transcription	Fetal Heart	heart
20	chr10:93868000-93901800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
21	chr10:93868400-93874200	Weak transcription	Rectal Mucosa Donor 29	rectum
22	chr10:93868800-93871200	Weak transcription	Left Ventricle	heart
23	chr10:93869000-93871600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
24	chr10:93869400-93871800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
25	chr10:93869400-93871800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
26	chr10:93869400-93873400	Enhancers	HSMMtube	muscle
27	chr10:93869600-93872000	Enhancers	HSMM	muscle
28	chr10:93869600-93872800	Weak transcription	Placenta	Placenta
29	chr10:93869800-93871400	Genic enhancers	Brain Anterior Caudate	brain
30	chr10:93869800-93871800	Enhancers	Primary hematopoietic stem cells short term culture	blood
31	chr10:93869800-93871800	Enhancers	Muscle Satellite Cultured Cells	--
32	chr10:93869800-93871800	Enhancers	Osteobl	bone
33	chr10:93870000-93871200	Genic enhancers	Fetal Adrenal Gland	Adrenal Gland
34	chr10:93870000-93871400	Enhancers	Brain Angular Gyrus	brain
35	chr10:93870000-93871400	Enhancers	Ovary	ovary
36	chr10:93870000-93871400	Enhancers	Pancreas	Pancrea
37	chr10:93870000-93871400	Enhancers	Psoas Muscle	Psoas
38	chr10:93870000-93871400	Enhancers	Right Ventricle	heart
39	chr10:93870000-93871600	Enhancers	Brain Cingulate Gyrus	brain
40	chr10:93870000-93871600	Enhancers	Skeletal Muscle Female	skeletal muscle
41	chr10:93870000-93871600	Enhancers	NHLF	lung
42	chr10:93870000-93871800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
43	chr10:93870000-93871800	Enhancers	NHDF-Ad	bronchial
44	chr10:93870200-93872200	Weak transcription	Lung	lung
45	chr10:93870200-93875000	Enhancers	HepG2	liver
46	chr10:93870200-93878400	Weak transcription	Skeletal Muscle Male	skeletal muscle
47	chr10:93870400-93871600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
48	chr10:93870400-93871600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
49	chr10:93870400-93876400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
50	chr10:93870600-93871200	Genic enhancers	Brain Hippocampus Middle	brain

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