Variant report

Variant	rs1417843
Chromosome Location	chr6:120038197-120038198
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	chr6:120033761..120036459-chr6:120036999..120039234,2	MCF-7	breast:
2	chr6:120027751..120029968-chr6:120036794..120039452,2	K562	blood:

Extended variants
information (count: 57 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:51)

rs_ID	r²[population]
rs10484866	0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11153842	0.83[CEU][hapmap]
rs11153843	0.97[EUR][1000 genomes]
rs11153846	0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11757432	0.97[EUR][1000 genomes]
rs11757501	0.89[EUR][1000 genomes]
rs11757553	0.89[EUR][1000 genomes]
rs12198857	0.91[EUR][1000 genomes]
rs12200888	0.89[EUR][1000 genomes]
rs12204573	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12205746	0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12207073	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs12211120	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12211253	0.89[EUR][1000 genomes]
rs12211678	0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12212825	1.00[AFR][1000 genomes];0.91[EUR][1000 genomes]
rs12213166	0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13193709	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13194523	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13202412	1.00[ASN][1000 genomes]
rs13204987	0.82[EUR][1000 genomes]
rs13208384	0.91[EUR][1000 genomes]
rs13209823	0.88[AFR][1000 genomes];0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1341497	0.89[EUR][1000 genomes]
rs17081512	0.89[EUR][1000 genomes]
rs17174818	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17175669	0.89[EUR][1000 genomes]
rs17254459	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1884252	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1884253	0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2077847	0.89[EUR][1000 genomes]
rs34024607	0.89[EUR][1000 genomes]
rs34663676	0.89[EUR][1000 genomes]
rs57243130	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6914520	0.81[EUR][1000 genomes]
rs6919761	0.96[AFR][1000 genomes];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6922820	0.89[EUR][1000 genomes]
rs6927271	0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs727606	0.89[EUR][1000 genomes]
rs731487	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7757952	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7764925	0.89[EUR][1000 genomes]
rs9285434	0.89[CEU][hapmap];0.89[EUR][1000 genomes]
rs9320701	0.90[CEU][hapmap];0.89[EUR][1000 genomes]
rs9387674	0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9481956	0.97[EUR][1000 genomes]
rs9489767	0.85[EUR][1000 genomes]
rs9489780	0.89[EUR][1000 genomes]
rs9489782	0.81[EUR][1000 genomes]
rs9489787	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs991356	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3447598	chr6:119558591-120119384	Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
2	esv3389526	chr6:119558598-120190087	ZNF genes & repeats Enhancers Weak transcription Active TSS Bivalent/Poised TSS Genic enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
3	esv3442553	chr6:119742069-120076777	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription	Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
4	nsv1027370	chr6:119869409-120056608	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription	Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	nsv538431	chr6:119869409-120056608	Weak transcription Active TSS Enhancers Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Strong transcription	Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
6	nsv1028580	chr6:120032073-120095538	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:120037800-120038400	Enhancers	HUES48 Cell Line	embryonic stem cell
2	chr6:120038000-120038200	Enhancers	NHEK	skin
3	chr6:120038000-120038400	Enhancers	H9 Cell Line	embryonic stem cell
4	chr6:120038000-120038400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
5	chr6:120038000-120038400	Enhancers	HUES6 Cell Line	embryonic stem cell
6	chr6:120038000-120038400	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
7	chr6:120038000-120038600	Enhancers	ES-I3 Cell Line	embryonic stem cell
8	chr6:120038000-120038600	Enhancers	iPS-20b Cell Line	embryonic stem cell
9	chr6:120038000-120038600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
10	chr6:120038000-120038800	Enhancers	H1 Cell Line	embryonic stem cell
11	chr6:120038000-120039200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
12	chr6:120038000-120039600	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links