Variant report

Variant	rs9296299
Chromosome Location	chr6:39442575-39442576
allele	A/C/G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:39442069..39445021-chr6:39449754..39451323,2	K562	blood:

Extended variants
information (count: 83 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:80)

rs_ID	r²[population]
rs10947813	0.93[ASN][1000 genomes]
rs11961693	0.88[ASN][1000 genomes]
rs11962587	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11964924	1.00[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11968279	0.80[ASN][1000 genomes]
rs11968704	0.89[CHB][hapmap];0.93[JPT][hapmap];0.87[ASN][1000 genomes]
rs11969059	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11969395	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1410488	0.84[ASN][1000 genomes]
rs1546910	0.80[CHB][hapmap]
rs16892158	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1927774	0.83[CHB][hapmap];0.91[CHD][hapmap];0.93[JPT][hapmap];0.84[ASN][1000 genomes]
rs1927775	0.83[CHB][hapmap];0.93[JPT][hapmap];0.84[ASN][1000 genomes]
rs1952362	0.83[CHB][hapmap];0.91[CHD][hapmap];0.93[JPT][hapmap];0.84[ASN][1000 genomes]
rs2026670	0.83[CHB][hapmap];0.86[CHD][hapmap]
rs2073134	0.80[CHB][hapmap]
rs2235817	0.89[CHB][hapmap];0.93[JPT][hapmap];0.88[ASN][1000 genomes]
rs2273063	0.89[CHB][hapmap];0.88[CHD][hapmap];0.86[JPT][hapmap];0.82[ASN][1000 genomes]
rs2395727	0.84[ASN][1000 genomes]
rs28533484	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35553201	0.80[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs3736735	0.86[JPT][hapmap]
rs4236064	0.89[CHB][hapmap];0.94[CHD][hapmap]
rs4464790	0.80[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs4482968	0.89[CHB][hapmap];0.86[JPT][hapmap];0.87[ASN][1000 genomes]
rs4482969	0.87[ASN][1000 genomes]
rs4540261	0.89[CHB][hapmap];0.97[CHD][hapmap];0.93[JPT][hapmap]
rs4711598	0.94[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs4714253	0.94[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs4714254	0.84[ASN][1000 genomes]
rs4714255	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4714256	0.94[CHB][hapmap];0.94[CHD][hapmap];0.86[ASN][1000 genomes]
rs55860200	0.82[ASN][1000 genomes]
rs57703896	0.82[ASN][1000 genomes]
rs59724542	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6901155	0.85[CHB][hapmap]
rs72850669	0.80[AMR][1000 genomes]
rs9296298	0.86[CHD][hapmap]
rs9296300	0.89[CHB][hapmap];0.91[CHD][hapmap]
rs9349120	1.00[ASW][hapmap];0.94[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.87[MEX][hapmap];1.00[MKK][hapmap];0.88[TSI][hapmap];0.86[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs9357305	0.85[ASN][1000 genomes]
rs9357307	0.83[CHB][hapmap]
rs9357308	0.88[CHB][hapmap];0.84[JPT][hapmap];0.88[ASN][1000 genomes]
rs9357309	0.89[CHB][hapmap];0.86[JPT][hapmap];0.86[ASN][1000 genomes]
rs9367008	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap]
rs9367009	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9367012	0.88[CHB][hapmap];0.93[JPT][hapmap];0.87[ASN][1000 genomes]
rs9367016	0.87[ASN][1000 genomes]
rs9369117	0.85[ASN][1000 genomes]
rs9369119	0.89[CHB][hapmap];0.91[CHD][hapmap]
rs9369123	0.82[ASN][1000 genomes]
rs9369124	0.81[ASN][1000 genomes]
rs9380861	0.86[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs9380862	0.84[ASN][1000 genomes]
rs9380863	0.83[CHB][hapmap];0.93[JPT][hapmap];0.85[ASN][1000 genomes]
rs9380864	0.94[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs9380865	0.82[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.81[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9380867	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9380868	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap]
rs9380871	0.88[ASN][1000 genomes]
rs9380872	0.88[ASN][1000 genomes]
rs9380873	0.88[CHB][hapmap];0.86[JPT][hapmap];0.88[ASN][1000 genomes]
rs9380877	0.86[JPT][hapmap]
rs9380880	0.82[CHD][hapmap]
rs9394592	0.94[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.87[MEX][hapmap];0.92[ASN][1000 genomes]
rs9394594	0.94[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.87[MEX][hapmap]
rs9394595	0.94[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.87[MEX][hapmap];1.00[MKK][hapmap];0.95[ASN][1000 genomes]
rs9394598	1.00[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap]
rs9394599	1.00[CEU][hapmap];0.94[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];1.00[TSI][hapmap]
rs9394600	1.00[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9394601	0.84[ASN][1000 genomes]
rs9394602	0.89[CHB][hapmap];0.86[JPT][hapmap];0.86[ASN][1000 genomes]
rs9394603	0.86[ASN][1000 genomes]
rs9394606	0.89[CHB][hapmap];0.86[JPT][hapmap];0.82[ASN][1000 genomes]
rs9394608	0.86[JPT][hapmap]
rs9394609	0.86[JPT][hapmap]
rs9394611	0.86[JPT][hapmap]
rs9462553	0.83[CHB][hapmap]
rs9471103	0.84[ASN][1000 genomes]
rs9471113	0.94[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv885822	chr6:39327708-39721216	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv428145	chr6:39404129-39460795	Enhancers Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	nsv885823	chr6:39421715-39526867	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:39435400-39444200	Weak transcription	Rectal Mucosa Donor 31	rectum
2	chr6:39441200-39443400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
3	chr6:39442400-39442600	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
4	chr6:39442400-39442800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
5	chr6:39442400-39442800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
6	chr6:39442400-39442800	Enhancers	Adipose Nuclei	Adipose

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links