Variant report

Variant	rs57156564
Chromosome Location	chr6:38667268-38667269
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:38656860..38659853-chr6:38666153..38668324,2	MCF-7	breast:
2	chr6:38626742..38628981-chr6:38666689..38669446,2	K562	blood:

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs10947757	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1130534	0.95[ASN][1000 genomes]
rs1579028	0.92[AMR][1000 genomes];0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1621483	0.90[ASN][1000 genomes]
rs4711556	0.92[AMR][1000 genomes];0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs58749921	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59793635	0.82[ASN][1000 genomes]
rs60262339	0.92[AMR][1000 genomes];0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6931745	0.82[ASN][1000 genomes]
rs6932648	0.96[ASN][1000 genomes]
rs7774234	0.84[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs9369075	0.95[ASN][1000 genomes]
rs9394522	0.86[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs9394523	0.96[ASN][1000 genomes]
rs9394524	0.96[ASN][1000 genomes]
rs9462451	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9462453	0.85[ASN][1000 genomes]
rs9470913	0.82[ASN][1000 genomes]
rs9470916	0.88[ASN][1000 genomes]
rs9470917	0.92[AMR][1000 genomes];0.87[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9470918	0.92[AMR][1000 genomes];0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 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	esv2758049	chr6:38588969-38711085	Strong transcription Enhancers Weak transcription Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
4	esv2759421	chr6:38588969-38711085	Flanking Active TSS Strong transcription Enhancers Weak transcription Active TSS Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
5	nsv427754	chr6:38588969-38711085	Flanking Active TSS Strong transcription Enhancers ZNF genes & repeats Bivalent Enhancer Weak transcription Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
6	nsv428144	chr6:38588969-38711085	Enhancers Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
7	nsv830642	chr6:38645056-38800657	Weak transcription Enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:79 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:38641200-38670000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
2	chr6:38641600-38668000	Weak transcription	NHLF	lung
3	chr6:38642800-38669800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr6:38646000-38670000	Weak transcription	A549	lung
5	chr6:38646800-38668200	Weak transcription	Primary T cells from cord blood	blood
6	chr6:38648800-38669800	Weak transcription	Skeletal Muscle Male	skeletal muscle
7	chr6:38651000-38667800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
8	chr6:38651200-38667800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
9	chr6:38651200-38668000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
10	chr6:38651200-38668000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
11	chr6:38651200-38669800	Weak transcription	HSMM	muscle
12	chr6:38651200-38670000	Weak transcription	Fetal Kidney	kidney
13	chr6:38651400-38669400	Weak transcription	Osteobl	bone
14	chr6:38652000-38668000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
15	chr6:38652400-38668000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
16	chr6:38653000-38668000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
17	chr6:38653000-38670000	Weak transcription	NHDF-Ad	bronchial
18	chr6:38653600-38669400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
19	chr6:38654400-38669800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
20	chr6:38654600-38668000	Weak transcription	H1 Cell Line	embryonic stem cell
21	chr6:38654600-38668000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
22	chr6:38654600-38668000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
23	chr6:38654600-38669400	Weak transcription	Hela-S3	cervix
24	chr6:38655200-38667400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
25	chr6:38655200-38669800	Weak transcription	Pancreas	Pancrea
26	chr6:38655200-38670000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
27	chr6:38655400-38668000	Weak transcription	HUES48 Cell Line	embryonic stem cell
28	chr6:38655600-38668000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
29	chr6:38656800-38668000	Weak transcription	Fetal Stomach	stomach
30	chr6:38656800-38668000	Weak transcription	Skeletal Muscle Female	skeletal muscle
31	chr6:38657000-38667400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
32	chr6:38657000-38668000	Weak transcription	Adipose Nuclei	Adipose
33	chr6:38657000-38668000	Weak transcription	Fetal Lung	lung
34	chr6:38657000-38668000	Weak transcription	Fetal Muscle Trunk	muscle
35	chr6:38657000-38668000	Weak transcription	Rectal Mucosa Donor 29	rectum
36	chr6:38657000-38669400	Weak transcription	Thymus	Thymus
37	chr6:38657000-38669800	Weak transcription	Colonic Mucosa	Colon
38	chr6:38657000-38669800	Weak transcription	Lung	lung
39	chr6:38657000-38670000	Weak transcription	Left Ventricle	heart
40	chr6:38657000-38670000	Weak transcription	Psoas Muscle	Psoas
41	chr6:38657200-38668000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
42	chr6:38657200-38668000	Weak transcription	Colon Smooth Muscle	Colon
43	chr6:38657200-38668200	Weak transcription	Brain Cingulate Gyrus	brain
44	chr6:38657400-38667400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
45	chr6:38657400-38668000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
46	chr6:38657600-38668000	Weak transcription	Cortex derived primary cultured neurospheres	brain
47	chr6:38657600-38668000	Weak transcription	HepG2	liver
48	chr6:38657600-38669600	Weak transcription	Fetal Brain Male	brain
49	chr6:38658400-38668000	Weak transcription	Liver	Liver
50	chr6:38660800-38668200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links