Variant report

Variant	rs11922631
Chromosome Location	chr3:178820678-178820679
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:178797484..178799048-chr3:178820545..178822252,2	K562	blood:
2	chr3:178809805..178811963-chr3:178818748..178821096,2	K562	blood:
3	chr3:178789299..178791720-chr3:178819637..178822523,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000172667	Chromatin interaction

Extended variants
information (count: 132 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:126)

rs_ID	r²[population]
rs1059691	1.00[ASN][1000 genomes]
rs10936992	0.95[ASN][1000 genomes]
rs10936994	0.85[ASN][1000 genomes]
rs11706842	0.82[CEU][hapmap];1.00[CHB][hapmap];0.91[YRI][hapmap];0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11708869	0.90[ASN][1000 genomes]
rs1183319	0.86[JPT][hapmap];0.81[ASN][1000 genomes]
rs11918324	0.88[ASN][1000 genomes]
rs11918587	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11919383	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs11920864	1.00[CEU][hapmap];0.83[EUR][1000 genomes]
rs11924545	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11924547	0.90[ASN][1000 genomes]
rs11924600	0.81[ASN][1000 genomes]
rs11925655	0.90[ASN][1000 genomes]
rs12488074	0.82[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs1568205	0.98[ASN][1000 genomes]
rs17849071	0.88[ASN][1000 genomes]
rs1850504	0.82[JPT][hapmap];0.90[ASN][1000 genomes]
rs1970901	0.82[CHB][hapmap];0.98[ASN][1000 genomes]
rs1976765	0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2865082	0.88[ASN][1000 genomes]
rs3729674	0.82[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs3729676	1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs3729682	0.88[ASN][1000 genomes]
rs3729694	0.88[ASN][1000 genomes]
rs3960984	1.00[CHB][hapmap]
rs3975510	0.85[ASN][1000 genomes]
rs3975513	0.98[ASN][1000 genomes]
rs3976507	1.00[CHB][hapmap];0.90[ASN][1000 genomes]
rs4080957	1.00[ASN][1000 genomes]
rs4855093	1.00[CHB][hapmap];0.90[ASN][1000 genomes]
rs4855095	1.00[CHB][hapmap];0.85[JPT][hapmap]
rs55685804	0.88[ASN][1000 genomes]
rs55933053	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs55961756	0.88[ASN][1000 genomes]
rs56023503	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs56095736	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56143971	0.88[ASN][1000 genomes]
rs56372555	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs56378415	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs56748382	0.88[AFR][1000 genomes];0.92[EUR][1000 genomes]
rs59340081	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs59408989	0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs59922883	0.90[ASN][1000 genomes]
rs61796482	0.88[ASN][1000 genomes]
rs61796483	0.81[ASN][1000 genomes]
rs62408837	0.93[ASN][1000 genomes]
rs6443619	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs6443624	0.82[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs6443625	0.98[ASN][1000 genomes]
rs6443626	0.90[ASN][1000 genomes]
rs6443627	0.90[ASN][1000 genomes]
rs6443628	1.00[ASN][1000 genomes]
rs6443629	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs67562832	0.95[ASN][1000 genomes]
rs67609137	0.90[ASN][1000 genomes]
rs6765953	0.88[ASN][1000 genomes]
rs6767284	1.00[CHB][hapmap];0.90[ASN][1000 genomes]
rs6769154	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs6769162	1.00[ASN][1000 genomes]
rs6769508	1.00[CHB][hapmap];0.90[ASN][1000 genomes]
rs6770267	0.90[ASN][1000 genomes]
rs6771313	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6774158	0.88[ASN][1000 genomes]
rs6777203	0.88[ASN][1000 genomes]
rs6782557	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs6786049	1.00[CHB][hapmap];0.91[YRI][hapmap]
rs6786114	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs6791153	0.88[ASN][1000 genomes]
rs67920954	0.88[ASN][1000 genomes]
rs6792189	0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6794252	0.95[ASN][1000 genomes]
rs6797304	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6798817	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs6799756	1.00[CHB][hapmap];0.90[ASN][1000 genomes]
rs6803076	0.98[ASN][1000 genomes]
rs6803219	0.98[ASN][1000 genomes]
rs6806555	0.90[ASN][1000 genomes]
rs6806917	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs6810246	1.00[CHB][hapmap];0.90[ASN][1000 genomes]
rs73051974	0.90[ASN][1000 genomes]
rs73187223	0.80[EUR][1000 genomes]
rs73187225	0.82[AFR][1000 genomes];0.90[EUR][1000 genomes]
rs73187264	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs73187276	0.88[ASN][1000 genomes]
rs7372645	1.00[ASN][1000 genomes]
rs7612533	0.90[ASN][1000 genomes]
rs7614305	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs7614418	0.88[ASN][1000 genomes]
rs7615076	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs7621329	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs7621436	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs7623154	0.82[CHB][hapmap];0.88[ASN][1000 genomes]
rs7624090	0.88[ASN][1000 genomes]
rs7627273	0.90[ASN][1000 genomes]
rs7628855	0.85[CEU][hapmap];1.00[CHB][hapmap];0.84[YRI][hapmap];0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7635669	1.00[CHB][hapmap]
rs7636454	0.82[CHB][hapmap];0.88[ASN][1000 genomes]
rs7638323	0.82[CHB][hapmap];0.88[ASN][1000 genomes]
rs7638525	0.80[EUR][1000 genomes]
rs7638649	0.90[ASN][1000 genomes]
rs7641889	0.82[CEU][hapmap];0.82[CHB][hapmap];0.91[YRI][hapmap];0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7641983	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs7644648	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs7646409	0.82[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs7648857	0.90[ASN][1000 genomes]
rs7650809	0.93[ASN][1000 genomes]
rs7651265	1.00[CHB][hapmap];0.91[YRI][hapmap];0.90[ASN][1000 genomes]
rs7651371	0.80[EUR][1000 genomes]
rs938752	0.85[CEU][hapmap];1.00[CHB][hapmap];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9631497	0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9813190	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs9819762	0.88[ASN][1000 genomes]
rs9829903	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs9831234	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs9833438	1.00[ASN][1000 genomes]
rs9838411	1.00[CHB][hapmap];0.90[ASN][1000 genomes]
rs9839519	0.90[ASN][1000 genomes]
rs9841051	0.98[ASN][1000 genomes]
rs9844270	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9844482	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs9850621	0.90[ASN][1000 genomes]
rs9862294	0.90[ASN][1000 genomes]
rs9866361	0.82[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs9877812	0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9881887	0.90[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	nsv998253	chr3:178622707-179196274	Flanking Active TSS Weak transcription Strong transcription Enhancers Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
2	nsv536814	chr3:178622707-179196274	Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
3	nsv461026	chr3:178661814-178886609	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
4	nsv592649	chr3:178661814-178886609	Strong transcription Flanking Active TSS Active TSS Weak transcription Enhancers Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
5	esv1792927	chr3:178734558-178877169	Enhancers Strong transcription Flanking Active TSS Weak transcription Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
6	esv1841799	chr3:178739594-178884337	Enhancers Active TSS Flanking Active TSS Weak transcription Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:178818800-178823400	Weak transcription	HMEC	breast
2	chr3:178818800-178823600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
3	chr3:178818800-178825000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
4	chr3:178818800-178825400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
5	chr3:178818800-178825400	Weak transcription	HSMM	muscle
6	chr3:178819000-178823400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chr3:178819200-178825400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links