Variant report

Variant	rs17201171
Chromosome Location	chr6:31773975-31773976
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:10)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:10 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:31772422..31776496-chr6:31829254..31834757,6	K562	blood:
2	chr6:31508080..31511338-chr6:31773122..31775825,3	K562	blood:
3	chr6:31626011..31627858-chr6:31773563..31776349,2	MCF-7	breast:
4	chr6:31773748..31775519-chr6:86387939..86390447,2	MCF-7	breast:
5	chr6:31587448..31589830-chr6:31773246..31774977,2	MCF-7	breast:
6	chr6:31742555..31745004-chr6:31773789..31777145,5	MCF-7	breast:
7	chr6:31760815..31765798-chr6:31772413..31777523,17	MCF-7	breast:
8	chr6:31761672..31765296-chr6:31772847..31776146,6	MCF-7	breast:
9	chr6:31773770..31774762-chr7:108166524..108167512,2	NB4	blood:
10	chr6:31773151..31774969-chr6:32936450..32939402,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000198563	Chromatin interaction
ENSG00000204396	Chromatin interaction
ENSG00000204257	Chromatin interaction
ENSG00000204394	Chromatin interaction
ENSG00000135241	Chromatin interaction
ENSG00000223837	Chromatin interaction
ENSG00000265236	Chromatin interaction
ENSG00000234006	Chromatin interaction
ENSG00000204385	Chromatin interaction
ENSG00000204469	Chromatin interaction
ENSG00000227198	Chromatin interaction
ENSG00000204256	Chromatin interaction
ENSG00000204386	Chromatin interaction
ENSG00000203875	Chromatin interaction

Extended variants
information (count: 25 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:3)

rs_ID	r²[population]
rs28589703	0.84[EUR][1000 genomes]
rs41312325	0.94[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs9501157	0.84[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:22 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv601609	chr6:31280101-31799786	Active TSS Flanking Active TSS Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Enhancers Genic enhancers Weak transcription Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	332 gene(s)	inside rSNPs	diseases
2	nsv601610	chr6:31280101-31960770	Enhancers Flanking Active TSS Weak transcription Genic enhancers Strong transcription Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	370 gene(s)	inside rSNPs	diseases
3	nsv601628	chr6:31280327-31990098	Weak transcription Transcr. at gene 5' and 3' Active TSS Enhancers Flanking Active TSS Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	376 gene(s)	inside rSNPs	diseases
4	nsv601629	chr6:31280327-31996185	Strong transcription Enhancers Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	376 gene(s)	inside rSNPs	diseases
5	nsv601630	chr6:31280327-32011317	Genic enhancers Active TSS Weak transcription Enhancers Strong transcription Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	378 gene(s)	inside rSNPs	diseases
6	nsv601631	chr6:31280327-32017540	Genic enhancers Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	378 gene(s)	inside rSNPs	diseases
7	nsv1023939	chr6:31325961-32026747	Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Enhancers Weak transcription ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	372 gene(s)	inside rSNPs	diseases
8	nsv538188	chr6:31325961-32026747	Active TSS Weak transcription Flanking Active TSS Enhancers Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	372 gene(s)	inside rSNPs	diseases
9	nsv1021747	chr6:31386219-31907266	Flanking Active TSS Active TSS Bivalent Enhancer Weak transcription Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Enhancers Genic enhancers Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	330 gene(s)	inside rSNPs	diseases
10	nsv1033154	chr6:31550614-32009410	Strong transcription Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS Enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	326 gene(s)	inside rSNPs	diseases
11	nsv1017945	chr6:31609641-32481240	Genic enhancers Weak transcription Transcr. at gene 5' and 3' Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	322 gene(s)	inside rSNPs	diseases
12	esv3428142	chr6:31615800-31881809	Flanking Active TSS Active TSS Weak transcription Enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	257 gene(s)	inside rSNPs	diseases
13	nsv884426	chr6:31728102-31800868	Enhancers Active TSS Weak transcription Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	139 gene(s)	inside rSNPs	diseases
14	nsv884427	chr6:31728102-31802465	Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	152 gene(s)	inside rSNPs	diseases
15	nsv884428	chr6:31728102-31870326	Enhancers Weak transcription Strong transcription Active TSS Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	162 gene(s)	inside rSNPs	diseases
16	nsv884429	chr6:31730356-31837066	Enhancers Transcr. at gene 5' and 3' Strong transcription Active TSS Weak transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	155 gene(s)	inside rSNPs	diseases
17	nsv884430	chr6:31731881-31800631	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	139 gene(s)	inside rSNPs	diseases
18	nsv884432	chr6:31734117-31777687	Active TSS Flanking Bivalent TSS/Enh Enhancers Strong transcription Flanking Active TSS Weak transcription Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	59 gene(s)	inside rSNPs	diseases
19	nsv884433	chr6:31737701-31777687	Strong transcription Flanking Active TSS Weak transcription Enhancers Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	59 gene(s)	inside rSNPs	diseases
20	nsv884437	chr6:31739881-31777687	Flanking Active TSS Enhancers Weak transcription Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	58 gene(s)	inside rSNPs	diseases
21	nsv884440	chr6:31743882-31775984	Enhancers Active TSS Flanking Active TSS Weak transcription Genic enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	57 gene(s)	inside rSNPs	diseases
22	nsv884443	chr6:31745518-31777687	Genic enhancers Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs17201171	ENSG00000204392	cis	multi-tissue	Pritchard

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:31764000-31774000	Weak transcription	Aorta	Aorta
2	chr6:31764000-31774000	Weak transcription	Ovary	ovary
3	chr6:31764200-31774000	Weak transcription	Left Ventricle	heart
4	chr6:31769600-31774200	Weak transcription	Spleen	Spleen
5	chr6:31771800-31774000	Weak transcription	Right Atrium	heart
6	chr6:31773400-31774000	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
7	chr6:31773400-31774000	Enhancers	Placenta	Placenta
8	chr6:31773400-31774200	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
9	chr6:31773400-31774200	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
10	chr6:31773400-31774200	Enhancers	Placenta Amnion	Placenta Amnion
11	chr6:31773400-31774200	Flanking Active TSS	Stomach Smooth Muscle	stomach
12	chr6:31773400-31774200	Flanking Active TSS	Dnd41	blood
13	chr6:31773400-31774200	Flanking Active TSS	Hela-S3	cervix
14	chr6:31773400-31774200	Flanking Active TSS	K562	blood
15	chr6:31773400-31774400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
16	chr6:31773400-31774800	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
17	chr6:31773400-31775000	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
18	chr6:31773600-31774000	Flanking Active TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
19	chr6:31773600-31774000	Flanking Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr6:31773600-31774000	Flanking Active TSS	HUES64 Cell Line	embryonic stem cell
21	chr6:31773600-31774000	Flanking Active TSS	iPS-18 Cell Line	embryonic stem cell
22	chr6:31773600-31774000	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
23	chr6:31773600-31774000	Flanking Active TSS	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
24	chr6:31773600-31774000	Enhancers	Primary B cells from peripheral blood	blood
25	chr6:31773600-31774000	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
26	chr6:31773600-31774000	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
27	chr6:31773600-31774000	Flanking Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
28	chr6:31773600-31774000	Enhancers	Pancreas	Pancrea
29	chr6:31773600-31774000	Flanking Active TSS	A549	lung
30	chr6:31773600-31774000	Flanking Active TSS	HMEC	breast
31	chr6:31773600-31774000	Flanking Active TSS	HSMM	muscle
32	chr6:31773600-31774200	Flanking Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
33	chr6:31773600-31774200	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
34	chr6:31773600-31774200	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
35	chr6:31773600-31774200	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
36	chr6:31773600-31774200	Flanking Active TSS	Muscle Satellite Cultured Cells	--
37	chr6:31773600-31774200	Flanking Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
38	chr6:31773600-31774200	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
39	chr6:31773600-31774200	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
40	chr6:31773600-31774200	Flanking Active TSS	Brain Germinal Matrix	brain
41	chr6:31773600-31774200	Flanking Active TSS	NH-A	brain
42	chr6:31773600-31774400	Flanking Active TSS	Breast Myoepithelial Primary Cells	Breast
43	chr6:31773600-31774400	Flanking Active TSS	Primary T cells from cord blood	blood
44	chr6:31773600-31774400	Flanking Active TSS	Primary hematopoietic stem cells	blood
45	chr6:31773600-31774400	Flanking Active TSS	Primary T helper naive cells from peripheral blood	blood
46	chr6:31773600-31774400	Flanking Active TSS	Primary T helper naive cells fromperipheralblood	blood
47	chr6:31773600-31774400	Flanking Active TSS	Brain Angular Gyrus	brain
48	chr6:31773600-31774400	Flanking Active TSS	HUVEC	blood vessel
49	chr6:31773600-31774400	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
50	chr6:31773600-31774400	Flanking Active TSS	Osteobl	bone

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links