Variant report

Variant	rs6441336
Chromosome Location	chr3:160616360-160616361
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:160283940..160285450-chr3:160615573..160617691,2	MCF-7	breast:

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

rSNPs within LD-proxies of this variant (count:53)

rs_ID	r²[population]
rs10513558	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs11709802	1.00[CEU][hapmap];0.85[JPT][hapmap];0.81[EUR][1000 genomes]
rs12485723	0.83[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs12496196	0.92[CEU][hapmap]
rs12498008	1.00[CEU][hapmap]
rs12635022	0.84[EUR][1000 genomes]
rs12696110	0.93[JPT][hapmap]
rs13079358	0.90[CEU][hapmap]
rs13079792	0.84[EUR][1000 genomes]
rs13086445	0.87[EUR][1000 genomes]
rs1348977	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1447616	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1447617	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1447624	0.87[JPT][hapmap];0.85[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs1562466	1.00[CEU][hapmap]
rs16831758	1.00[CEU][hapmap]
rs1839014	0.81[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs1839020	0.87[EUR][1000 genomes]
rs1868104	1.00[CEU][hapmap];0.85[JPT][hapmap];0.83[EUR][1000 genomes]
rs1868106	0.93[JPT][hapmap]
rs1971240	1.00[CEU][hapmap]
rs2028988	1.00[CEU][hapmap];0.85[JPT][hapmap]
rs4679667	1.00[CEU][hapmap];0.94[CHB][hapmap];0.93[JPT][hapmap];0.90[EUR][1000 genomes]
rs4679925	0.84[EUR][1000 genomes]
rs6441333	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6441334	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6441335	0.89[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs6441342	0.87[EUR][1000 genomes]
rs6441343	0.84[EUR][1000 genomes]
rs6441344	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs6770488	0.93[JPT][hapmap]
rs6776120	1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs6785844	1.00[CEU][hapmap];1.00[CHB][hapmap];0.87[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6787694	1.00[CEU][hapmap]
rs6789195	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6797498	0.86[JPT][hapmap];0.82[EUR][1000 genomes]
rs6799391	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7610732	1.00[CEU][hapmap];0.86[JPT][hapmap];0.83[EUR][1000 genomes]
rs7617759	0.91[CEU][hapmap]
rs7619552	0.82[EUR][1000 genomes]
rs7629001	0.82[EUR][1000 genomes]
rs7629374	0.85[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs7636886	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7653744	0.82[EUR][1000 genomes]
rs778647	1.00[CEU][hapmap]
rs778650	0.84[CEU][hapmap]
rs796610	1.00[CEU][hapmap]
rs878954	0.85[EUR][1000 genomes]
rs878955	0.84[EUR][1000 genomes]
rs935496	0.93[EUR][1000 genomes]
rs935500	0.87[EUR][1000 genomes]
rs9814174	1.00[CEU][hapmap];1.00[CHB][hapmap];0.87[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9818081	1.00[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv532666	chr3:159777847-160703202	Enhancers Weak transcription ZNF genes & repeats Strong transcription Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	271 gene(s)	inside rSNPs	diseases
2	nsv1009249	chr3:160496237-160627378	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
3	nsv536780	chr3:160496237-160627378	Enhancers Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
4	esv3391648	chr3:160602299-160620598	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:160604400-160616600	Weak transcription	Psoas Muscle	Psoas
2	chr3:160611200-160619400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr3:160611600-160618600	Weak transcription	HUES48 Cell Line	embryonic stem cell
4	chr3:160612200-160618800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
5	chr3:160613000-160619000	Weak transcription	H1 Cell Line	embryonic stem cell
6	chr3:160615200-160616600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
7	chr3:160615800-160618800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
8	chr3:160615800-160620800	Weak transcription	Fetal Brain Male	brain
9	chr3:160616000-160618600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
10	chr3:160616000-160619000	Weak transcription	HUES64 Cell Line	embryonic stem cell
11	chr3:160616000-160619000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
12	chr3:160616200-160616400	Weak transcription	Aorta	Aorta

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