Variant report

Variant	rs7857628
Chromosome Location	chr9:6409874-6409875
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:6408551..6411662-chr9:6412630..6415165,4	MCF-7	breast:
2	chr9:6408168..6410435-chr9:6411394..6414242,2	K562	blood:

Variant related genes	Relation type
ENSG00000147854	Chromatin interaction

Extended variants
information (count: 113 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:99)

rs_ID	r²[population]
rs10115362	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10115883	0.88[CHD][hapmap];0.94[JPT][hapmap]
rs10122116	1.00[JPT][hapmap]
rs10124572	0.82[ASN][1000 genomes]
rs10733529	0.86[ASN][1000 genomes]
rs10739097	0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10739098	1.00[CHB][hapmap];0.88[CHD][hapmap];0.94[JPT][hapmap];0.86[ASN][1000 genomes]
rs10739099	1.00[CHB][hapmap];0.94[JPT][hapmap];0.86[ASN][1000 genomes]
rs10739100	0.86[ASN][1000 genomes]
rs10739102	0.83[ASN][1000 genomes]
rs10758783	0.85[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10758784	1.00[CHB][hapmap];0.88[CHD][hapmap];0.89[JPT][hapmap];0.85[ASN][1000 genomes]
rs10758785	1.00[CHB][hapmap];0.88[CHD][hapmap];0.89[JPT][hapmap];0.86[ASN][1000 genomes]
rs10758786	0.84[ASN][1000 genomes]
rs10758787	0.84[ASN][1000 genomes]
rs10758788	1.00[CHB][hapmap];0.89[JPT][hapmap];0.85[ASN][1000 genomes]
rs10758789	1.00[CHB][hapmap];0.82[CHD][hapmap];0.89[JPT][hapmap];0.84[ASN][1000 genomes]
rs10758790	1.00[CHB][hapmap];0.82[CHD][hapmap];0.89[JPT][hapmap];0.84[ASN][1000 genomes]
rs10758792	0.84[ASN][1000 genomes]
rs10815411	0.83[ASN][1000 genomes]
rs10815412	0.81[EUR][1000 genomes]
rs10815428	0.94[CHB][hapmap];0.94[JPT][hapmap];0.96[ASN][1000 genomes]
rs10975552	0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10975553	0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10975557	0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10975579	0.83[ASN][1000 genomes]
rs10975582	0.83[ASN][1000 genomes]
rs10975583	1.00[CHB][hapmap];0.88[CHD][hapmap];0.94[JPT][hapmap];0.87[ASN][1000 genomes]
rs10975585	0.88[ASN][1000 genomes]
rs10975595	0.94[JPT][hapmap]
rs10975605	0.88[CHD][hapmap];0.94[JPT][hapmap]
rs1156747	1.00[CHB][hapmap];0.82[CHD][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs11790625	0.83[ASN][1000 genomes]
rs11791651	0.94[JPT][hapmap]
rs11795355	0.94[JPT][hapmap]
rs12346455	0.82[CHB][hapmap];0.94[JPT][hapmap]
rs12347573	0.94[JPT][hapmap]
rs12351293	0.82[ASN][1000 genomes]
rs12376117	0.84[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1322171	0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs13283381	0.82[CHB][hapmap];0.82[CHD][hapmap]
rs13291472	0.82[CHB][hapmap];0.94[JPT][hapmap]
rs13298500	0.80[CHB][hapmap];0.82[CHD][hapmap]
rs1381035	1.00[CHB][hapmap];0.88[JPT][hapmap];0.83[ASN][1000 genomes]
rs1381036	0.83[ASN][1000 genomes]
rs1381037	0.83[ASN][1000 genomes]
rs1575263	0.80[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1575264	0.87[ASN][1000 genomes]
rs16924328	0.83[CHB][hapmap];0.90[JPT][hapmap]
rs16924434	0.83[ASN][1000 genomes]
rs16924562	1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs16924591	0.80[ASN][1000 genomes]
rs16924624	0.82[CHB][hapmap];0.94[JPT][hapmap]
rs16924626	1.00[JPT][hapmap]
rs16924631	0.82[CHB][hapmap];1.00[JPT][hapmap]
rs16924634	0.82[CHD][hapmap];0.89[JPT][hapmap]
rs1824537	0.83[ASN][1000 genomes]
rs1870696	1.00[JPT][hapmap]
rs1903419	0.88[CHB][hapmap];0.94[JPT][hapmap];0.83[ASN][1000 genomes]
rs1969731	0.88[EUR][1000 genomes]
rs2065074	0.82[ASN][1000 genomes]
rs2065075	0.85[ASN][1000 genomes]
rs2169282	0.83[ASN][1000 genomes]
rs2169283	0.94[CHB][hapmap];0.88[CHD][hapmap];0.85[ASN][1000 genomes]
rs2169286	1.00[CHB][hapmap];0.89[JPT][hapmap];0.88[ASN][1000 genomes]
rs2381444	0.83[ASN][1000 genomes]
rs33962342	0.84[JPT][hapmap]
rs3739654	0.94[JPT][hapmap]
rs4384035	0.82[ASN][1000 genomes]
rs4740844	1.00[CHB][hapmap];0.89[JPT][hapmap];0.85[ASN][1000 genomes]
rs4740845	0.85[ASN][1000 genomes]
rs4742181	0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4742199	0.85[ASN][1000 genomes]
rs4742201	1.00[CHB][hapmap];0.82[CHD][hapmap];0.89[JPT][hapmap];0.84[ASN][1000 genomes]
rs4742202	1.00[CHB][hapmap];0.82[CHD][hapmap];0.89[JPT][hapmap];0.84[ASN][1000 genomes]
rs504698	0.80[ASN][1000 genomes]
rs55960819	0.82[ASN][1000 genomes]
rs56218473	0.86[ASN][1000 genomes]
rs56396114	0.82[ASN][1000 genomes]
rs56939673	0.85[ASN][1000 genomes]
rs569866	0.80[ASN][1000 genomes]
rs6477087	0.88[CHD][hapmap];0.94[JPT][hapmap]
rs67852216	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7022186	0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7027302	0.82[ASN][1000 genomes]
rs7029772	0.82[CHB][hapmap]
rs7033940	0.81[ASN][1000 genomes]
rs719724	0.80[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs719725	0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs73401679	0.81[ASN][1000 genomes]
rs7852539	0.94[JPT][hapmap]
rs7853059	0.81[ASN][1000 genomes]
rs7853834	0.81[ASN][1000 genomes]
rs7860427	0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7860966	0.81[ASN][1000 genomes]
rs7861073	0.81[ASN][1000 genomes]
rs7861559	0.81[ASN][1000 genomes]
rs7865955	1.00[CHB][hapmap];1.00[CHD][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7875812	0.81[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:14 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv948847	chr9:5712626-6417677	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
2	nsv1031086	chr9:5806949-6630686	Strong transcription Enhancers Weak transcription Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
3	nsv539967	chr9:5806949-6630686	Flanking Active TSS Enhancers Strong transcription Weak transcription Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
4	nsv933124	chr9:6099101-6644738	Weak transcription Genic enhancers Bivalent Enhancer Flanking Active TSS Strong transcription Enhancers Active TSS 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	28 gene(s)	inside rSNPs	diseases
5	nsv1029000	chr9:6188652-6687205	Enhancers Strong transcription Weak transcription Active TSS Transcr. at gene 5' and 3' Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	68 gene(s)	inside rSNPs	diseases
6	nsv1031459	chr9:6216913-6657192	Active TSS Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
7	nsv948562	chr9:6222553-6684955	Bivalent/Poised TSS Flanking Active TSS Weak transcription Strong transcription Genic enhancers Enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	67 gene(s)	inside rSNPs	diseases
8	nsv1032350	chr9:6328167-6630686	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
9	nsv892160	chr9:6364449-6506038	Weak transcription Genic enhancers Strong transcription Enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
10	nsv892161	chr9:6364449-6523056	Enhancers Bivalent/Poised TSS Strong transcription Weak transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
11	nsv831497	chr9:6377501-6612402	Weak transcription Flanking Active TSS Genic enhancers Enhancers Strong transcription Active TSS 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	21 gene(s)	inside rSNPs	diseases
12	nsv1023419	chr9:6393886-6415025	Active TSS Weak transcription Flanking Bivalent TSS/Enh Enhancers Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
13	nsv523675	chr9:6402856-6409874	Weak transcription Flanking Active TSS Enhancers	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
14	nsv523692	chr9:6402856-6409874	Enhancers Weak transcription Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:6405400-6412200	Weak transcription	Thymus	Thymus
2	chr9:6405800-6410600	Weak transcription	Monocytes-CD14+_RO01746	blood
3	chr9:6407000-6411800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
4	chr9:6408200-6412200	Weak transcription	Primary T cells from cord blood	blood
5	chr9:6408800-6411800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
6	chr9:6408800-6412200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
7	chr9:6408800-6412400	Weak transcription	Pancreas	Pancrea
8	chr9:6409000-6412200	Weak transcription	NHEK	skin
9	chr9:6409800-6412400	Weak transcription	Liver	Liver

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links