Variant report

Variant	rs17178532
Chromosome Location	chr6:29727760-29727761
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs12665494	0.92[EUR][1000 genomes]
rs17178518	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17178525	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs17184883	1.00[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs29234	0.86[ASN][1000 genomes]
rs29235	0.86[ASN][1000 genomes]
rs29238	1.00[ASN][1000 genomes]
rs29240	1.00[ASN][1000 genomes]
rs29272	0.86[ASN][1000 genomes]
rs3025623	1.00[ASN][1000 genomes]
rs34171517	0.92[EUR][1000 genomes]
rs3734818	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3909134	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73747624	1.00[ASN][1000 genomes]
rs7772652	0.92[EUR][1000 genomes]
rs9461541	0.86[ASN][1000 genomes]
rs9468571	0.86[ASN][1000 genomes]
rs9468572	0.86[ASN][1000 genomes]
rs9500947	0.86[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv20940	chr6:29653954-29923410	Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Active TSS Weak transcription Enhancers 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	46 gene(s)	inside rSNPs	diseases
2	nsv428475	chr6:29659525-29763392	Strong transcription Weak transcription Flanking Active TSS Active TSS Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
3	nsv428139	chr6:29659525-29892317	Bivalent Enhancer Active TSS Enhancers Flanking Active TSS Bivalent/Poised TSS Weak transcription Strong transcription Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	41 gene(s)	inside rSNPs	diseases
4	nsv427749	chr6:29659525-29975144	Enhancers Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Weak transcription Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	53 gene(s)	inside rSNPs	diseases
5	nsv508397	chr6:29663132-29761448	Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Weak transcription Strong transcription Transcr. at gene 5' and 3' Enhancers Bivalent/Poised TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases
6	esv1794141	chr6:29670915-29765814	Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
7	nsv10809	chr6:29692573-29794119	Flanking Active TSS Enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Weak transcription Genic enhancers Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases
8	nsv883532	chr6:29703262-29814963	Flanking Active TSS Active TSS Enhancers Bivalent Enhancer Weak transcription Genic enhancers Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
9	esv3441842	chr6:29715749-29942950	Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Strong transcription Bivalent/Poised TSS Active TSS Genic enhancers Bivalent Enhancer Enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
10	nsv883535	chr6:29725321-29741338	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:29721600-29729400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr6:29723000-29728600	Enhancers	ES-I3 Cell Line	embryonic stem cell
3	chr6:29723200-29728600	Enhancers	H1 Cell Line	embryonic stem cell
4	chr6:29723200-29728600	Enhancers	H9 Cell Line	embryonic stem cell
5	chr6:29723200-29728600	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
6	chr6:29723600-29728000	Weak transcription	Primary B cells from peripheral blood	blood
7	chr6:29724200-29728000	Enhancers	ES-WA7 Cell Line	embryonic stem cell
8	chr6:29724200-29728400	Enhancers	HUES48 Cell Line	embryonic stem cell
9	chr6:29724200-29728600	Enhancers	HUES6 Cell Line	embryonic stem cell
10	chr6:29724200-29728600	Enhancers	HUES64 Cell Line	embryonic stem cell
11	chr6:29725200-29728200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
12	chr6:29725200-29728400	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
13	chr6:29725400-29728000	Enhancers	Hela-S3	cervix
14	chr6:29725800-29728400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
15	chr6:29725800-29728600	Enhancers	iPS-15b Cell Line	embryonic stem cell
16	chr6:29726000-29729000	Weak transcription	HMEC	breast
17	chr6:29726400-29728400	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
18	chr6:29726800-29727800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr6:29726800-29728000	Bivalent Enhancer	HepG2	liver
20	chr6:29726800-29728400	Enhancers	Spleen	Spleen
21	chr6:29726800-29728600	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
22	chr6:29727000-29728400	Enhancers	HUVEC	blood vessel
23	chr6:29727000-29728600	Enhancers	iPS-18 Cell Line	embryonic stem cell
24	chr6:29727000-29728600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
25	chr6:29727200-29728600	Enhancers	iPS-20b Cell Line	embryonic stem cell
26	chr6:29727200-29728600	Enhancers	Lung	lung
27	chr6:29727400-29728400	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
28	chr6:29727400-29729600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
29	chr6:29727600-29728400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
30	chr6:29727600-29728600	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links