Variant report

Variant	rs6694729
Chromosome Location	chr1:150079777-150079778
allele	C/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	STAT3	chr1:150079479-150079785	MCF10A-Er-Src	breast:	n/a	chr1:150079622-150079633

No.	Distal block	Cell Line	Cell type
1	chr1:149858960..149861194-chr1:150078850..150080469,2	MCF-7	breast:
2	chr1:150073862..150075535-chr1:150079363..150081008,2	K562	blood:
3	chr1:150077494..150080152-chr1:150081123..150083361,2	K562	blood:

Variant related genes	Relation type
VPS45	TF binding region
ENSG00000178096	Chromatin interaction
ENSG00000136631	Chromatin interaction
ENSG00000184270	Chromatin interaction

Extended variants
information (count: 160 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:159)

rs_ID	r²[population]
rs10494264	0.81[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10749674	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs10888568	0.90[EUR][1000 genomes]
rs10888569	0.96[AFR][1000 genomes];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10888572	0.89[AFR][1000 genomes];0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1105209	0.85[EUR][1000 genomes]
rs11205316	0.83[AFR][1000 genomes];0.80[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs11205317	0.89[EUR][1000 genomes]
rs11205319	0.89[EUR][1000 genomes]
rs11205321	0.90[EUR][1000 genomes]
rs11205326	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs11205329	0.82[AFR][1000 genomes];0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11205331	0.95[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11205333	0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11205337	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs11577346	0.95[EUR][1000 genomes]
rs11583720	0.96[EUR][1000 genomes]
rs11584091	0.98[EUR][1000 genomes]
rs11584354	0.94[EUR][1000 genomes]
rs11585955	0.96[EUR][1000 genomes]
rs11587963	0.98[EUR][1000 genomes]
rs11589585	0.89[EUR][1000 genomes]
rs11589801	0.87[EUR][1000 genomes]
rs11589922	0.93[EUR][1000 genomes]
rs11591200	0.93[EUR][1000 genomes]
rs12058090	0.89[EUR][1000 genomes]
rs12058502	0.87[EUR][1000 genomes]
rs12060027	0.90[EUR][1000 genomes]
rs12060211	0.89[EUR][1000 genomes]
rs12061167	0.89[EUR][1000 genomes]
rs12061196	0.89[EUR][1000 genomes]
rs12061565	0.88[EUR][1000 genomes]
rs12061856	0.88[EUR][1000 genomes]
rs12062861	0.87[EUR][1000 genomes]
rs12063059	0.89[EUR][1000 genomes]
rs12063281	0.87[EUR][1000 genomes]
rs12063329	0.87[EUR][1000 genomes]
rs12064532	0.84[EUR][1000 genomes]
rs12065681	0.89[EUR][1000 genomes]
rs12066132	0.89[EUR][1000 genomes]
rs12066293	0.89[EUR][1000 genomes]
rs12067422	0.89[EUR][1000 genomes]
rs12073359	0.88[EUR][1000 genomes]
rs12074281	0.90[EUR][1000 genomes]
rs12093499	0.87[EUR][1000 genomes]
rs12098106	0.88[EUR][1000 genomes]
rs12124898	0.85[EUR][1000 genomes]
rs12138231	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs12139248	0.86[AFR][1000 genomes];0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1339494	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1339495	0.84[AFR][1000 genomes];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1382573	0.93[EUR][1000 genomes]
rs1545762	0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1824847	0.94[AFR][1000 genomes]
rs1824848	0.88[EUR][1000 genomes]
rs1824849	0.93[EUR][1000 genomes]
rs1824850	0.93[EUR][1000 genomes]
rs1964542	0.96[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1975957	0.95[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2027349	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2039800	0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2169895	0.96[AFR][1000 genomes];0.80[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2318763	0.97[EUR][1000 genomes]
rs2319280	0.88[EUR][1000 genomes]
rs28366567	0.86[EUR][1000 genomes]
rs28443768	0.88[EUR][1000 genomes]
rs28560140	0.89[EUR][1000 genomes]
rs28660389	0.90[EUR][1000 genomes]
rs28753817	0.89[EUR][1000 genomes]
rs3118119	0.81[EUR][1000 genomes]
rs3208509	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs3850838	0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs3925724	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4058847	0.98[AFR][1000 genomes];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4926388	0.96[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs4926391	0.88[EUR][1000 genomes]
rs4926406	0.88[EUR][1000 genomes]
rs4926407	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs4926408	0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4926409	0.94[AFR][1000 genomes];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4926411	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4926412	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs55633125	0.89[EUR][1000 genomes]
rs55647342	0.91[EUR][1000 genomes]
rs55802315	0.89[EUR][1000 genomes]
rs55840680	0.98[EUR][1000 genomes]
rs55840906	0.87[EUR][1000 genomes]
rs55909733	0.98[EUR][1000 genomes]
rs55918911	0.90[EUR][1000 genomes]
rs56125600	0.90[EUR][1000 genomes]
rs56188926	0.97[EUR][1000 genomes]
rs56212907	0.96[EUR][1000 genomes]
rs56349882	0.93[EUR][1000 genomes]
rs56369603	0.98[EUR][1000 genomes]
rs57926929	0.94[EUR][1000 genomes]
rs58426216	0.96[EUR][1000 genomes]
rs59607464	0.93[EUR][1000 genomes]
rs6657062	0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6666959	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs6687454	0.87[EUR][1000 genomes]
rs72692857	0.87[EUR][1000 genomes]
rs72692861	0.88[EUR][1000 genomes]
rs72692862	0.87[EUR][1000 genomes]
rs72692865	0.89[EUR][1000 genomes]
rs72692866	0.89[EUR][1000 genomes]
rs72692869	0.89[EUR][1000 genomes]
rs72692886	0.94[EUR][1000 genomes]
rs72692893	0.96[EUR][1000 genomes]
rs72692895	0.96[EUR][1000 genomes]
rs72692896	0.96[EUR][1000 genomes]
rs72692897	0.96[EUR][1000 genomes]
rs72692898	0.96[EUR][1000 genomes]
rs72692899	0.96[EUR][1000 genomes]
rs72692900	0.96[EUR][1000 genomes]
rs72692901	0.96[EUR][1000 genomes]
rs72694905	0.96[EUR][1000 genomes]
rs72694906	0.97[EUR][1000 genomes]
rs72694908	0.97[EUR][1000 genomes]
rs72694914	0.96[EUR][1000 genomes]
rs72694915	0.96[EUR][1000 genomes]
rs72694917	0.97[EUR][1000 genomes]
rs72694918	0.97[EUR][1000 genomes]
rs72694919	0.97[EUR][1000 genomes]
rs72694923	0.96[EUR][1000 genomes]
rs72694926	0.98[EUR][1000 genomes]
rs72694927	0.99[EUR][1000 genomes]
rs72694928	0.98[EUR][1000 genomes]
rs72694933	0.98[EUR][1000 genomes]
rs72694936	0.98[EUR][1000 genomes]
rs72694942	0.98[EUR][1000 genomes]
rs72694943	0.99[EUR][1000 genomes]
rs72694944	0.98[EUR][1000 genomes]
rs72694945	0.98[EUR][1000 genomes]
rs72694946	0.97[EUR][1000 genomes]
rs72694950	0.97[EUR][1000 genomes]
rs72694951	0.98[EUR][1000 genomes]
rs72694953	0.98[EUR][1000 genomes]
rs72694954	0.96[EUR][1000 genomes]
rs72694956	0.93[EUR][1000 genomes]
rs72694957	0.93[EUR][1000 genomes]
rs72694959	0.89[EUR][1000 genomes]
rs72694960	0.84[EUR][1000 genomes]
rs72694961	0.84[EUR][1000 genomes]
rs72694962	0.85[EUR][1000 genomes]
rs72694964	0.84[EUR][1000 genomes]
rs72694965	0.84[EUR][1000 genomes]
rs7519918	0.91[AFR][1000 genomes];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7520930	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7521768	0.86[EUR][1000 genomes]
rs7521783	0.86[EUR][1000 genomes]
rs7530922	0.89[EUR][1000 genomes]
rs7540847	0.90[EUR][1000 genomes]
rs7544145	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs7550323	0.90[EUR][1000 genomes]
rs7550350	0.84[AFR][1000 genomes];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7553622	0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7554367	0.95[AFR][1000 genomes];0.88[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs7555080	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9662055	0.89[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	nsv529719	chr1:150006344-150311095	Enhancers Flanking Active TSS Strong transcription Weak transcription Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	100 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:113 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:150040200-150090800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr1:150040400-150082800	Weak transcription	Small Intestine	intestine
3	chr1:150040400-150086800	Weak transcription	Esophagus	oesophagus
4	chr1:150040400-150121400	Weak transcription	Pancreas	Pancrea
5	chr1:150040600-150092000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
6	chr1:150041000-150114400	Weak transcription	Right Ventricle	heart
7	chr1:150042200-150086600	Weak transcription	Gastric	stomach
8	chr1:150042600-150090800	Weak transcription	Stomach Mucosa	stomach
9	chr1:150050600-150084800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
10	chr1:150052000-150116800	Weak transcription	Spleen	Spleen
11	chr1:150055000-150086200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
12	chr1:150055000-150100600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
13	chr1:150055000-150120800	Weak transcription	Aorta	Aorta
14	chr1:150055200-150096000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
15	chr1:150055200-150104800	Weak transcription	Brain Cingulate Gyrus	brain
16	chr1:150056200-150081800	Weak transcription	Brain Substantia Nigra	brain
17	chr1:150056600-150086400	Weak transcription	H1 Cell Line	embryonic stem cell
18	chr1:150057000-150084800	Weak transcription	A549	lung
19	chr1:150060000-150096000	Weak transcription	Placenta Amnion	Placenta Amnion
20	chr1:150061000-150116800	Weak transcription	Ovary	ovary
21	chr1:150061800-150084800	Weak transcription	Left Ventricle	heart
22	chr1:150063800-150083400	Weak transcription	Stomach Smooth Muscle	stomach
23	chr1:150066200-150081400	Weak transcription	Primary hematopoietic stem cells	blood
24	chr1:150066200-150086600	Weak transcription	HUES6 Cell Line	embryonic stem cell
25	chr1:150066200-150087800	Weak transcription	HSMMtube	muscle
26	chr1:150066200-150096600	Weak transcription	Rectal Smooth Muscle	rectum
27	chr1:150067000-150113200	Weak transcription	Skeletal Muscle Male	skeletal muscle
28	chr1:150067200-150082200	Weak transcription	NHDF-Ad	bronchial
29	chr1:150067200-150083200	Weak transcription	Brain Anterior Caudate	brain
30	chr1:150067200-150086400	Weak transcription	HMEC	breast
31	chr1:150067200-150101200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
32	chr1:150067400-150081200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
33	chr1:150067400-150086800	Weak transcription	HUES64 Cell Line	embryonic stem cell
34	chr1:150067400-150087200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
35	chr1:150067400-150121200	Weak transcription	Colonic Mucosa	Colon
36	chr1:150067600-150083200	Weak transcription	Brain Hippocampus Middle	brain
37	chr1:150068400-150084800	Weak transcription	Psoas Muscle	Psoas
38	chr1:150068600-150083400	Weak transcription	K562	blood
39	chr1:150068600-150084800	Weak transcription	Muscle Satellite Cultured Cells	--
40	chr1:150069000-150081200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
41	chr1:150069000-150081400	Weak transcription	GM12878-XiMat	blood
42	chr1:150069000-150081800	Weak transcription	Primary B cells from cord blood	blood
43	chr1:150069000-150086800	Weak transcription	Brain Inferior Temporal Lobe	brain
44	chr1:150069000-150093600	Weak transcription	NHEK	skin
45	chr1:150069000-150113800	Weak transcription	Fetal Kidney	kidney
46	chr1:150069000-150121000	Weak transcription	NHLF	lung
47	chr1:150069800-150082400	Weak transcription	Osteobl	bone
48	chr1:150070400-150081600	Weak transcription	HUVEC	blood vessel
49	chr1:150070400-150084600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
50	chr1:150070400-150084800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links