Variant report

Variant	rs9348925
Chromosome Location	chr6:33710696-33710697
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:33706317..33709748-chr6:33710509..33712632,5	MCF-7	breast:
2	chr6:33706241..33709561-chr6:33709640..33714031,4	MCF-7	breast:
3	chr6:33708535..33711845-chr6:33715070..33719242,6	MCF-7	breast:
4	chr6:33704170..33706170-chr6:33708932..33711756,3	MCF-7	breast:

Extended variants
information (count: 64 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:61)

rs_ID	r²[population]
rs1014933	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs10947430	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10947434	0.94[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10947435	0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1555965	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2147656	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2147657	0.88[AMR][1000 genomes]
rs2274458	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2281829	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2296738	0.81[AMR][1000 genomes]
rs2296739	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs28651968	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2966	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs3227	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs3818521	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs3818524	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs3818527	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs3818530	0.89[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4711339	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs4711340	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs4711343	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4713655	0.85[AMR][1000 genomes]
rs4713659	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4713660	0.81[AMR][1000 genomes]
rs4713661	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4713662	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4713665	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4713666	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs4713667	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs4713669	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4713670	0.82[AFR][1000 genomes];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4713671	0.82[AFR][1000 genomes];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4713672	0.81[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4713674	0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4713675	0.92[ASN][1000 genomes]
rs509539	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs560111	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs60704560	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6457739	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs6904816	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6916949	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs6917140	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs6928010	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6938056	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs749338	0.81[AMR][1000 genomes]
rs749847	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs753890	0.82[AMR][1000 genomes]
rs7739505	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7759668	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7770465	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs791902	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs791903	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs9348924	0.86[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9366828	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs9368773	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs9368776	0.96[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9380375	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9394163	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs942640	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs942643	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs9469566	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv830638	chr6:33551202-33711346	Enhancers Weak transcription Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	46 gene(s)	inside rSNPs	diseases
2	nsv830639	chr6:33592022-33711346	Strong transcription Enhancers Flanking Active TSS Weak transcription Transcr. at gene 5' and 3' Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	30 gene(s)	inside rSNPs	diseases
3	nsv885772	chr6:33638180-33767727	Bivalent Enhancer Genic enhancers Strong transcription Enhancers Weak transcription Transcr. at gene 5' and 3' Flanking Active TSS Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	28 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:60 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:33691800-33711600	Weak transcription	Duodenum Smooth Muscle	Duodenum
2	chr6:33693600-33712000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
3	chr6:33695600-33711800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
4	chr6:33705400-33712000	Weak transcription	Placenta Amnion	Placenta Amnion
5	chr6:33705800-33711000	Strong transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr6:33706600-33715800	Enhancers	Fetal Intestine Large	intestine
7	chr6:33706800-33711400	Weak transcription	Rectal Mucosa Donor 31	rectum
8	chr6:33707200-33711400	Enhancers	Fetal Brain Male	brain
9	chr6:33707400-33714000	Weak transcription	Spleen	Spleen
10	chr6:33707600-33711000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
11	chr6:33708600-33710800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
12	chr6:33708600-33711600	Weak transcription	HMEC	breast
13	chr6:33709000-33711400	Weak transcription	Liver	Liver
14	chr6:33709000-33711600	Weak transcription	Primary neutrophils fromperipheralblood	blood
15	chr6:33709000-33711600	Weak transcription	HepG2	liver
16	chr6:33709000-33711800	Weak transcription	Hela-S3	cervix
17	chr6:33709000-33712000	Weak transcription	Gastric	stomach
18	chr6:33709000-33712400	Weak transcription	Fetal Heart	heart
19	chr6:33709200-33710800	Weak transcription	Pancreas	Pancrea
20	chr6:33709200-33711800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
21	chr6:33709800-33710800	Enhancers	HSMMtube	muscle
22	chr6:33709800-33711000	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
23	chr6:33709800-33711200	Enhancers	Placenta	Placenta
24	chr6:33710000-33711000	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
25	chr6:33710000-33711000	Transcr. at gene 5' and 3'	Right Ventricle	heart
26	chr6:33710000-33711200	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
27	chr6:33710000-33711200	Transcr. at gene 5' and 3'	Skeletal Muscle Female	skeletal muscle
28	chr6:33710000-33711600	Transcr. at gene 5' and 3'	Skeletal Muscle Male	skeletal muscle
29	chr6:33710000-33711800	Bivalent Enhancer	Fetal Muscle Trunk	muscle
30	chr6:33710000-33712600	Transcr. at gene 5' and 3'	HSMM	muscle
31	chr6:33710200-33710800	Enhancers	H1 Cell Line	embryonic stem cell
32	chr6:33710200-33710800	Enhancers	Colon Smooth Muscle	Colon
33	chr6:33710200-33711000	Enhancers	Lung	lung
34	chr6:33710200-33711200	Weak transcription	Fetal Intestine Small	intestine
35	chr6:33710200-33711400	Genic enhancers	Fetal Muscle Leg	muscle
36	chr6:33710200-33712000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
37	chr6:33710400-33710800	Enhancers	iPS-18 Cell Line	embryonic stem cell
38	chr6:33710400-33710800	Genic enhancers	Brain Cingulate Gyrus	brain
39	chr6:33710400-33711000	Enhancers	Right Atrium	heart
40	chr6:33710400-33711200	Enhancers	Fetal Brain Female	brain
41	chr6:33710400-33711600	Weak transcription	Stomach Mucosa	stomach
42	chr6:33710400-33712000	Enhancers	Brain Hippocampus Middle	brain
43	chr6:33710400-33712000	Enhancers	Brain Substantia Nigra	brain
44	chr6:33710400-33712000	Enhancers	Fetal Lung	lung
45	chr6:33710400-33712200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
46	chr6:33710600-33710800	Enhancers	HUES48 Cell Line	embryonic stem cell
47	chr6:33710600-33710800	Enhancers	HUES6 Cell Line	embryonic stem cell
48	chr6:33710600-33710800	Enhancers	HUES64 Cell Line	embryonic stem cell
49	chr6:33710600-33710800	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
50	chr6:33710600-33710800	Flanking Active TSS	Psoas Muscle	Psoas

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