Variant report

Variant	rs11188844
Chromosome Location	chr10:98351763-98351764
allele	G/T
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	chr10:98350926-98351833	GM12892	blood:	n/a	n/a
2	POLR2A	chr10:98348202-98352713	GM12878	blood:	n/a	n/a
3	POLR2A	chr10:98351536-98352263	GM12892	blood:	n/a	n/a
4	SPI1	chr10:98351676-98352111	HL-60	blood:	n/a	n/a
5	POLR2A	chr10:98351740-98352884	GM12878	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr10:98345341..98350021-chr10:98351580..98356203,7	MCF-7	breast:
2	chr10:98323660..98326200-chr10:98351272..98352990,2	MCF-7	breast:
3	chr10:98349885..98352079-chr10:98354867..98358726,5	MCF-7	breast:
4	chr10:98345562..98347503-chr10:98350531..98353019,3	K562	blood:

Variant related genes	Relation type
TM9SF3	TF binding region
ENSG00000077147	Chromatin interaction

Extended variants
information (count: 115 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10128106	0.82[ASN][1000 genomes]
rs1018604	0.84[JPT][hapmap];0.94[ASN][1000 genomes]
rs1018605	0.83[JPT][hapmap];0.94[ASN][1000 genomes]
rs1051450	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1062176	0.83[EUR][1000 genomes]
rs1063605	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10736114	0.84[JPT][hapmap]
rs10882809	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10882811	0.83[JPT][hapmap];0.82[ASN][1000 genomes]
rs10882813	0.84[JPT][hapmap];0.82[ASN][1000 genomes]
rs10882815	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10882817	0.82[ASN][1000 genomes]
rs10882821	0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10882827	0.93[CEU][hapmap];1.00[CHB][hapmap];0.80[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs11188809	0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11188810	0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11188811	0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11188813	0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11188814	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11188815	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11188817	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11188821	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11188822	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11188825	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11188831	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11188832	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11188833	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11188840	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11188842	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11188847	0.94[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11188848	0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11188853	0.85[ASN][1000 genomes]
rs11188856	0.84[JPT][hapmap]
rs11188858	0.85[ASN][1000 genomes]
rs1132913	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1132914	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1156035	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1156036	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11814010	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12218847	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12219275	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12220047	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12221143	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12221262	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12413053	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12414612	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12415048	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12416646	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12761817	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12766248	0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12775533	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12776810	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12779720	0.89[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1324255	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1324256	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1324259	0.94[ASN][1000 genomes]
rs1324261	0.86[ASN][1000 genomes]
rs1408367	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17391547	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs17482382	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2011190	0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2025451	0.94[ASN][1000 genomes]
rs2031326	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2031329	0.82[ASN][1000 genomes]
rs2861555	0.82[ASN][1000 genomes]
rs33964467	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs35779764	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs36098523	0.80[AMR][1000 genomes];0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3689	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3748234	0.83[JPT][hapmap]
rs3748236	0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3748237	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3748238	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs3789957	0.84[JPT][hapmap];0.82[ASN][1000 genomes]
rs3789958	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3818389	0.84[JPT][hapmap];0.82[ASN][1000 genomes]
rs4146727	1.00[CHB][hapmap];0.90[JPT][hapmap];0.86[ASN][1000 genomes]
rs4485036	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4534508	1.00[CEU][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4917742	0.84[JPT][hapmap]
rs4919029	0.83[JPT][hapmap];0.82[ASN][1000 genomes]
rs4919032	0.84[JPT][hapmap];0.91[ASN][1000 genomes]
rs4919037	0.94[ASN][1000 genomes]
rs4919040	0.82[CHB][hapmap]
rs58305369	0.80[AMR][1000 genomes];0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs61858194	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs61858494	0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs61859300	0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7069429	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7070686	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7071044	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7071224	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7071881	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7073017	0.82[AMR][1000 genomes];0.80[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7073682	0.80[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs7074516	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7082873	1.00[CEU][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7085389	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7086213	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7086240	0.94[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7087478	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7091606	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs7097291	0.94[ASN][1000 genomes]
rs7101320	0.83[ASN][1000 genomes]
rs713251	0.94[CEU][hapmap];0.83[JPT][hapmap];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7448	0.83[JPT][hapmap];0.94[ASN][1000 genomes]
rs7914154	0.84[JPT][hapmap]
rs7919739	0.84[JPT][hapmap];0.82[ASN][1000 genomes]
rs8578	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs912480	0.83[JPT][hapmap]
rs927639	0.83[ASN][1000 genomes]
rs9633703	0.83[JPT][hapmap];0.91[ASN][1000 genomes]
rs9664749	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9664955	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][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	esv3413353	chr10:98039370-98561524	Enhancers Genic enhancers Weak transcription Strong transcription Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	45 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:38 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:98347000-98354600	Weak transcription	Spleen	Spleen
2	chr10:98347400-98358800	Weak transcription	Pancreas	Pancrea
3	chr10:98347800-98365800	Weak transcription	Ovary	ovary
4	chr10:98348000-98354600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
5	chr10:98348000-98373600	Weak transcription	Left Ventricle	heart
6	chr10:98348200-98352200	Weak transcription	Primary monocytes fromperipheralblood	blood
7	chr10:98348200-98352400	Weak transcription	Primary B cells from peripheral blood	blood
8	chr10:98348200-98352600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
9	chr10:98348200-98352800	Weak transcription	Primary B cells from cord blood	blood
10	chr10:98348200-98354200	Weak transcription	Placenta	Placenta
11	chr10:98348200-98356200	Weak transcription	Adipose Nuclei	Adipose
12	chr10:98348200-98357800	Weak transcription	Primary T cells fromperipheralblood	blood
13	chr10:98348200-98359000	Weak transcription	Brain Substantia Nigra	brain
14	chr10:98348800-98355200	Weak transcription	HSMMtube	muscle
15	chr10:98349400-98352400	Weak transcription	Liver	Liver
16	chr10:98349400-98352600	Weak transcription	Monocytes-CD14+_RO01746	blood
17	chr10:98349600-98354800	Weak transcription	Rectal Mucosa Donor 31	rectum
18	chr10:98349600-98355600	Weak transcription	Duodenum Mucosa	Duodenum
19	chr10:98349800-98352400	Weak transcription	GM12878-XiMat	blood
20	chr10:98349800-98354200	Weak transcription	Fetal Intestine Large	intestine
21	chr10:98349800-98354400	Weak transcription	Fetal Intestine Small	intestine
22	chr10:98349800-98354400	Weak transcription	Sigmoid Colon	Sigmoid Colon
23	chr10:98349800-98355200	Weak transcription	K562	blood
24	chr10:98349800-98366400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
25	chr10:98349800-98367800	Weak transcription	Small Intestine	intestine
26	chr10:98350000-98355200	Weak transcription	Stomach Mucosa	stomach
27	chr10:98350200-98352800	Enhancers	Primary hematopoietic stem cells short term culture	blood
28	chr10:98350800-98395600	Strong transcription	Primary neutrophils fromperipheralblood	blood
29	chr10:98351000-98352800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
30	chr10:98351000-98352800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
31	chr10:98351400-98352400	Enhancers	Primary hematopoietic stem cells	blood
32	chr10:98351400-98352400	Enhancers	Fetal Thymus	thymus
33	chr10:98351400-98352400	Enhancers	Dnd41	blood
34	chr10:98351600-98352000	Enhancers	Primary T helper naive cells fromperipheralblood	blood
35	chr10:98351600-98352000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
36	chr10:98351600-98352200	Enhancers	Primary T cells from cord blood	blood
37	chr10:98351600-98352200	Enhancers	Primary T helper cells PMA-I stimulated	--
38	chr10:98351600-98363400	Weak transcription	Brain Hippocampus Middle	brain

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