Variant report

Variant	rs1931758
Chromosome Location	chr6:38287295-38287296
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:38275306..38278894-chr6:38287022..38290918,3	MCF-7	breast:
2	chr6:38286667..38288698-chr6:38291233..38294146,2	MCF-7	breast:

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs1033480	0.89[EUR][1000 genomes]
rs10947725	0.92[ASN][1000 genomes]
rs10947726	0.92[ASN][1000 genomes]
rs10947728	0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10947729	0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11759824	0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1205108	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12201631	0.83[AFR][1000 genomes];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12202804	1.00[AFR][1000 genomes];0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12206324	0.92[ASN][1000 genomes]
rs12208912	0.84[EUR][1000 genomes]
rs12214470	0.81[ASN][1000 genomes]
rs12215850	0.85[ASN][1000 genomes]
rs228179	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs228180	0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs228186	0.80[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs228188	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs28445226	0.92[ASN][1000 genomes]
rs6458051	0.81[ASN][1000 genomes]
rs6940319	0.81[ASN][1000 genomes]
rs7755429	0.81[ASN][1000 genomes]
rs7763775	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs871183	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9349073	0.81[ASN][1000 genomes]
rs9394495	0.85[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	nsv1021991	chr6:37893949-38738720	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
2	nsv885817	chr6:38036420-39019503	Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Strong transcription Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
3	nsv534620	chr6:38049585-38602064	Enhancers Strong transcription Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
4	nsv885818	chr6:38147745-38436317	Enhancers Weak transcription Strong transcription Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	nsv885820	chr6:38166511-38468887	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:33 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:38274400-38288600	Weak transcription	Duodenum Mucosa	Duodenum
2	chr6:38275400-38301200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
3	chr6:38276000-38287600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
4	chr6:38276000-38287800	Weak transcription	Pancreatic Islets	Pancreatic Islet
5	chr6:38278000-38310600	Weak transcription	Gastric	stomach
6	chr6:38278200-38288000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
7	chr6:38278200-38295000	Weak transcription	Lung	lung
8	chr6:38278400-38305400	Weak transcription	Pancreas	Pancrea
9	chr6:38282600-38301400	Weak transcription	Sigmoid Colon	Sigmoid Colon
10	chr6:38283000-38304000	Weak transcription	Primary T helper cells fromperipheralblood	blood
11	chr6:38284200-38296000	Weak transcription	Primary T cells fromperipheralblood	blood
12	chr6:38284400-38287600	Weak transcription	Cortex derived primary cultured neurospheres	brain
13	chr6:38284800-38301200	Weak transcription	Fetal Intestine Small	intestine
14	chr6:38285000-38327800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
15	chr6:38285200-38288200	Weak transcription	Primary B cells from peripheral blood	blood
16	chr6:38285400-38287600	Enhancers	GM12878-XiMat	blood
17	chr6:38286200-38287600	Strong transcription	Primary T cells from cord blood	blood
18	chr6:38286400-38287400	ZNF genes & repeats	Fetal Stomach	stomach
19	chr6:38286400-38287600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
20	chr6:38286600-38287600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
21	chr6:38286600-38287600	Enhancers	NHEK	skin
22	chr6:38286600-38288000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
23	chr6:38286600-38288000	Enhancers	Placenta	Placenta
24	chr6:38286800-38287600	Enhancers	HMEC	breast
25	chr6:38286800-38288000	Enhancers	HSMMtube	muscle
26	chr6:38286800-38290000	Enhancers	Fetal Muscle Leg	muscle
27	chr6:38286800-38291000	Weak transcription	Psoas Muscle	Psoas
28	chr6:38286800-38295400	Weak transcription	Rectal Mucosa Donor 29	rectum
29	chr6:38287200-38287400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
30	chr6:38287200-38288000	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
31	chr6:38287200-38288000	Enhancers	HUES6 Cell Line	embryonic stem cell
32	chr6:38287200-38288000	Enhancers	Fetal Muscle Trunk	muscle
33	chr6:38287200-38289400	Enhancers	Brain Anterior Caudate	brain

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