Variant report

Variant	rs7088961
Chromosome Location	chr10:97608114-97608115
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 119 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:114)

rs_ID	r²[population]
rs10736092	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10736093	0.80[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs10736094	1.00[ASN][1000 genomes]
rs10748642	0.92[AMR][1000 genomes];0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10748643	0.80[AFR][1000 genomes];0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10748645	0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10748647	0.88[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10748648	0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10748649	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10786234	0.93[ASN][1000 genomes]
rs10786236	0.93[ASN][1000 genomes]
rs10882655	0.92[AMR][1000 genomes];0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10882656	0.92[AMR][1000 genomes];0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10882657	0.84[ASN][1000 genomes]
rs10882660	0.80[AFR][1000 genomes];0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10882663	0.82[AFR][1000 genomes];0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10882666	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10882668	0.85[ASN][1000 genomes]
rs10882669	0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10882673	0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10882674	0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10882675	0.80[AFR][1000 genomes];0.80[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs10882676	0.81[AFR][1000 genomes];0.80[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs11188445	0.92[AMR][1000 genomes];0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11188446	0.84[ASN][1000 genomes]
rs11188449	0.92[AMR][1000 genomes];0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11188452	0.91[AMR][1000 genomes];0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11188460	0.83[AMR][1000 genomes]
rs11188465	0.84[ASN][1000 genomes]
rs11188486	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11188497	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11188513	1.00[ASN][1000 genomes]
rs11517041	0.95[ASN][1000 genomes]
rs1342790	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1418709	0.88[ASN][1000 genomes]
rs1539433	0.82[AFR][1000 genomes];0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1573112	0.80[AMR][1000 genomes];0.81[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1891534	0.91[AFR][1000 genomes];0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1933165	0.83[ASN][1000 genomes]
rs1933172	0.81[ASN][1000 genomes]
rs2051052	0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2095713	0.84[ASN][1000 genomes]
rs2153913	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2153914	1.00[ASN][1000 genomes]
rs2185818	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2226163	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2275759	0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2861147	0.83[ASN][1000 genomes]
rs2861148	0.83[ASN][1000 genomes]
rs2861152	0.91[AFR][1000 genomes];0.84[AMR][1000 genomes];0.81[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2901872	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3176881	0.86[AFR][1000 genomes];0.81[AMR][1000 genomes];0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3176885	0.80[ASN][1000 genomes]
rs3176890	0.88[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3176891	0.80[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs3181123	0.80[ASN][1000 genomes]
rs3181124	0.91[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3181129	0.83[ASN][1000 genomes]
rs3181131	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3181132	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3814159	0.84[ASN][1000 genomes]
rs3892344	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3929900	0.93[ASN][1000 genomes]
rs3934409	0.83[ASN][1000 genomes]
rs4074424	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4075310	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4322324	0.82[AFR][1000 genomes];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4336961	0.92[AMR][1000 genomes];0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4381306	0.92[AMR][1000 genomes];0.80[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4396219	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4412693	0.81[AFR][1000 genomes];0.80[AMR][1000 genomes];0.81[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4431963	0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4539246	0.80[AMR][1000 genomes];0.81[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4551688	0.80[AFR][1000 genomes];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4582902	0.89[ASN][1000 genomes]
rs4614366	0.82[ASN][1000 genomes]
rs4625389	0.86[AMR][1000 genomes]
rs4917705	0.92[ASN][1000 genomes]
rs4917707	0.92[ASN][1000 genomes]
rs4917714	0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4917715	0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4918960	0.89[AMR][1000 genomes]
rs4918962	0.84[ASN][1000 genomes]
rs4918968	0.85[AFR][1000 genomes];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4918969	0.95[ASN][1000 genomes]
rs4918971	0.82[ASN][1000 genomes]
rs4918973	0.82[ASN][1000 genomes]
rs4918974	0.91[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs5014871	0.80[AFR][1000 genomes];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6584017	0.84[ASN][1000 genomes]
rs6584018	0.80[ASN][1000 genomes]
rs6584022	0.92[AMR][1000 genomes];0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6584023	0.92[AMR][1000 genomes];0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6584027	0.93[ASN][1000 genomes]
rs6584030	0.82[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7069030	0.92[AMR][1000 genomes];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7071836	0.80[AFR][1000 genomes];0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7074403	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7077566	0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7082531	0.88[ASN][1000 genomes]
rs7083411	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7083960	0.88[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7086986	0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7088584	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7094382	0.92[AMR][1000 genomes];0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7094484	0.92[AMR][1000 genomes];0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7095587	0.92[AMR][1000 genomes];0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7096317	0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7097489	0.88[ASN][1000 genomes]
rs7099844	0.84[ASN][1000 genomes]
rs7478595	0.81[ASN][1000 genomes]
rs7913082	0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7914286	0.95[ASN][1000 genomes]
rs7921242	0.86[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	nsv531923	chr10:97366055-97725757	Enhancers Strong transcription Active TSS Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
2	nsv895905	chr10:97513362-97686064	Enhancers Weak transcription Active TSS Strong transcription Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
3	nsv895906	chr10:97513362-97703650	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
4	nsv895907	chr10:97529318-97686064	Weak transcription Enhancers Strong transcription Active TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
5	nsv895908	chr10:97544513-97724247	Enhancers Active TSS Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs7088961	ENTPD1	cis	multi-tissue	Pritchard
rs7088961	TCTN3	Cis_1M	lymphoblastoid	RTeQTL
rs7088961	ALDH18A1	Cis_1M	lymphoblastoid	RTeQTL
rs7088961	ENTPD1	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:40 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:97592600-97632800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
2	chr10:97597200-97627200	Weak transcription	Brain Inferior Temporal Lobe	brain
3	chr10:97597400-97624600	Weak transcription	Placenta	Placenta
4	chr10:97597400-97627400	Weak transcription	Brain Angular Gyrus	brain
5	chr10:97597600-97609600	Weak transcription	Cortex derived primary cultured neurospheres	brain
6	chr10:97597600-97620600	Weak transcription	Sigmoid Colon	Sigmoid Colon
7	chr10:97600600-97628600	Weak transcription	Colonic Mucosa	Colon
8	chr10:97601200-97624600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
9	chr10:97601600-97624400	Weak transcription	Fetal Intestine Large	intestine
10	chr10:97601600-97635600	Weak transcription	Fetal Brain Male	brain
11	chr10:97601800-97608800	Weak transcription	Colon Smooth Muscle	Colon
12	chr10:97601800-97609200	Strong transcription	GM12878-XiMat	blood
13	chr10:97601800-97624600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
14	chr10:97601800-97626000	Weak transcription	Rectal Mucosa Donor 31	rectum
15	chr10:97601800-97626400	Weak transcription	Brain Hippocampus Middle	brain
16	chr10:97601800-97627200	Weak transcription	Liver	Liver
17	chr10:97601800-97635400	Weak transcription	Brain Substantia Nigra	brain
18	chr10:97601800-97647800	Weak transcription	Brain Cingulate Gyrus	brain
19	chr10:97602200-97611000	Strong transcription	Monocytes-CD14+_RO01746	blood
20	chr10:97602400-97610800	Strong transcription	Primary neutrophils fromperipheralblood	blood
21	chr10:97602400-97611000	Strong transcription	Primary monocytes fromperipheralblood	blood
22	chr10:97602400-97655400	Weak transcription	Skeletal Muscle Male	skeletal muscle
23	chr10:97602600-97610800	Strong transcription	Primary B cells from cord blood	blood
24	chr10:97603000-97624800	Weak transcription	Fetal Intestine Small	intestine
25	chr10:97603200-97624800	Weak transcription	Duodenum Mucosa	Duodenum
26	chr10:97603800-97620200	Weak transcription	Spleen	Spleen
27	chr10:97604400-97609800	Strong transcription	Aorta	Aorta
28	chr10:97605400-97620800	Weak transcription	Rectal Mucosa Donor 29	rectum
29	chr10:97606800-97608200	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
30	chr10:97606800-97610600	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
31	chr10:97606800-97611000	Strong transcription	Primary B cells from peripheral blood	blood
32	chr10:97607000-97610200	Strong transcription	Stomach Smooth Muscle	stomach
33	chr10:97607200-97608400	Strong transcription	Left Ventricle	heart
34	chr10:97607200-97610200	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
35	chr10:97607200-97610600	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
36	chr10:97607200-97610600	Strong transcription	Duodenum Smooth Muscle	Duodenum
37	chr10:97607400-97609600	Strong transcription	Brain Anterior Caudate	brain
38	chr10:97607600-97608600	Strong transcription	Fetal Stomach	stomach
39	chr10:97607800-97608400	ZNF genes & repeats	Lung	lung
40	chr10:97607800-97608400	Strong transcription	Rectal Smooth Muscle	rectum

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