Variant report

Variant	rs1853167
Chromosome Location	chr10:89556913-89556914
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr10:89556526-89557040	Hela-S3	cervix:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:89543639..89545668-chr10:89555412..89557312,2	MCF-7	breast:

Variant related genes	Relation type
ATAD1	TF binding region

Extended variants
information (count: 65 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:63)

rs_ID	r²[population]
rs10082347	0.82[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs10218936	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10887752	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10887753	0.81[AMR][1000 genomes]
rs11202536	0.88[CEU][hapmap]
rs11202538	0.87[CEU][hapmap]
rs11202553	0.87[CEU][hapmap];0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs11202555	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11202557	0.87[CEU][hapmap];0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs11202563	0.81[AMR][1000 genomes]
rs11202564	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[YRI][hapmap];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11202565	0.89[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs11202571	0.88[CEU][hapmap];0.81[AMR][1000 genomes]
rs11498630	0.81[AMR][1000 genomes]
rs11816798	0.87[CEU][hapmap];0.81[EUR][1000 genomes]
rs11817759	0.88[CEU][hapmap];0.81[EUR][1000 genomes]
rs11818430	0.81[EUR][1000 genomes]
rs12247482	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs12253113	0.87[CEU][hapmap]
rs12570639	0.88[CEU][hapmap];0.81[EUR][1000 genomes]
rs12573160	0.91[CEU][hapmap];0.81[EUR][1000 genomes]
rs12573349	0.81[EUR][1000 genomes]
rs12762731	0.87[CEU][hapmap]
rs12769214	0.81[AMR][1000 genomes]
rs12770684	0.81[EUR][1000 genomes]
rs12771188	0.91[CEU][hapmap];0.81[EUR][1000 genomes]
rs12772552	0.88[CEU][hapmap]
rs12773536	0.88[CEU][hapmap];0.81[AMR][1000 genomes]
rs12775017	0.87[CEU][hapmap]
rs12775041	0.87[CEU][hapmap]
rs12778199	0.87[CEU][hapmap];0.81[EUR][1000 genomes]
rs12779915	0.88[CEU][hapmap]
rs12780237	0.87[CEU][hapmap]
rs12781171	0.87[CEU][hapmap]
rs12782235	0.81[EUR][1000 genomes]
rs12782454	0.81[AMR][1000 genomes]
rs12783598	0.85[CEU][hapmap];0.81[EUR][1000 genomes]
rs1321934	0.92[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1819162	0.87[CEU][hapmap];0.81[EUR][1000 genomes]
rs1819163	0.81[EUR][1000 genomes]
rs1923260	0.81[EUR][1000 genomes]
rs1923261	0.81[EUR][1000 genomes]
rs1923262	0.81[EUR][1000 genomes]
rs1960047	0.81[AMR][1000 genomes]
rs1993845	0.87[CEU][hapmap];0.81[EUR][1000 genomes]
rs2038554	0.83[CEU][hapmap];0.87[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2057358	0.88[CEU][hapmap]
rs3740278	0.80[EUR][1000 genomes]
rs3816651	0.88[CEU][hapmap]
rs6586102	0.87[CEU][hapmap];0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs7068497	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7085412	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7090088	0.88[CEU][hapmap];0.87[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs7098653	0.82[EUR][1000 genomes]
rs7481	0.83[CEU][hapmap]
rs7898915	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7904344	0.87[CEU][hapmap]
rs7908641	0.82[EUR][1000 genomes]
rs7910692	0.87[CEU][hapmap];0.81[EUR][1000 genomes]
rs7920778	0.87[CEU][hapmap]
rs9651491	0.88[CEU][hapmap];0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs9663978	0.81[EUR][1000 genomes]
rs9664653	0.87[CEU][hapmap];0.80[AMR][1000 genomes];0.81[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv518233	chr10:89512839-89584002	Weak transcription Genic enhancers Enhancers Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
2	nsv1041462	chr10:89518729-89584284	Strong transcription Flanking Active TSS Weak transcription Genic enhancers Enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:123 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:89473000-89577200	Weak transcription	Gastric	stomach
2	chr10:89495000-89576400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
3	chr10:89495200-89559200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr10:89495200-89577400	Weak transcription	Spleen	Spleen
5	chr10:89507000-89557600	Weak transcription	Lung	lung
6	chr10:89511000-89576800	Weak transcription	Colonic Mucosa	Colon
7	chr10:89512800-89560400	Weak transcription	Fetal Brain Male	brain
8	chr10:89513400-89577000	Weak transcription	Placenta Amnion	Placenta Amnion
9	chr10:89516400-89557800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
10	chr10:89518400-89559000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
11	chr10:89520600-89575600	Weak transcription	Stomach Mucosa	stomach
12	chr10:89523400-89562800	Weak transcription	K562	blood
13	chr10:89523800-89562000	Weak transcription	Pancreatic Islets	Pancreatic Islet
14	chr10:89524600-89560400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
15	chr10:89527400-89575000	Weak transcription	Brain Inferior Temporal Lobe	brain
16	chr10:89530800-89575800	Weak transcription	Brain Cingulate Gyrus	brain
17	chr10:89536200-89557800	Weak transcription	Cortex derived primary cultured neurospheres	brain
18	chr10:89536200-89574600	Weak transcription	Brain Anterior Caudate	brain
19	chr10:89537000-89560400	Weak transcription	Small Intestine	intestine
20	chr10:89537000-89576400	Weak transcription	HSMMtube	muscle
21	chr10:89538200-89558600	Strong transcription	Hela-S3	cervix
22	chr10:89540200-89560000	Weak transcription	Fetal Kidney	kidney
23	chr10:89540200-89562800	Weak transcription	Fetal Heart	heart
24	chr10:89540800-89560000	Weak transcription	Fetal Brain Female	brain
25	chr10:89540800-89563000	Weak transcription	Ovary	ovary
26	chr10:89541800-89575000	Weak transcription	Right Ventricle	heart
27	chr10:89542000-89571200	Weak transcription	Brain Hippocampus Middle	brain
28	chr10:89543000-89562000	Weak transcription	Thymus	Thymus
29	chr10:89543000-89571400	Weak transcription	Rectal Smooth Muscle	rectum
30	chr10:89543200-89557600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
31	chr10:89543200-89559000	Weak transcription	H9 Cell Line	embryonic stem cell
32	chr10:89543200-89563200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
33	chr10:89543200-89572200	Weak transcription	Skeletal Muscle Male	skeletal muscle
34	chr10:89543400-89577200	Weak transcription	Aorta	Aorta
35	chr10:89546000-89557400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
36	chr10:89546000-89559200	Strong transcription	Primary hematopoietic stem cells short term culture	blood
37	chr10:89547000-89563800	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
38	chr10:89548200-89574800	Weak transcription	Skeletal Muscle Female	skeletal muscle
39	chr10:89549400-89557400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
40	chr10:89549400-89575400	Weak transcription	Brain Angular Gyrus	brain
41	chr10:89549600-89559000	Weak transcription	Fetal Intestine Small	intestine
42	chr10:89549800-89561800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
43	chr10:89550000-89572200	Weak transcription	HUVEC	blood vessel
44	chr10:89551200-89560000	Strong transcription	Primary hematopoietic stem cells	blood
45	chr10:89552200-89557000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
46	chr10:89552200-89557600	Weak transcription	Right Atrium	heart
47	chr10:89552400-89557600	Weak transcription	Psoas Muscle	Psoas
48	chr10:89552400-89558400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
49	chr10:89552400-89559000	Weak transcription	NHLF	lung
50	chr10:89552400-89560600	Weak transcription	Muscle Satellite Cultured Cells	--

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