Variant report

Variant	rs2351504
Chromosome Location	chr5:96528222-96528223
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	chr5:96519642..96521582-chr5:96527509..96529068,2	MCF-7	breast:

Extended variants
information (count: 54 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:46)

rs_ID	r²[population]
rs1000082	0.96[ASN][1000 genomes]
rs1000083	0.96[ASN][1000 genomes]
rs10068664	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10463199	0.89[ASN][1000 genomes]
rs10866776	0.86[ASN][1000 genomes]
rs11135499	0.86[ASN][1000 genomes]
rs1406325	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1406326	0.89[ASN][1000 genomes]
rs1528592	0.86[ASN][1000 genomes]
rs1528594	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1609326	0.89[ASN][1000 genomes]
rs1609327	0.86[ASN][1000 genomes]
rs1830366	0.89[ASN][1000 genomes]
rs1830368	0.86[ASN][1000 genomes]
rs183410	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1852739	0.89[ASN][1000 genomes]
rs1862592	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1919244	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1919245	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1997296	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2081139	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2081140	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2081142	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2351506	0.89[ASN][1000 genomes]
rs2548412	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2548422	0.95[EUR][1000 genomes]
rs2548423	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2643465	0.89[ASN][1000 genomes]
rs2643496	0.82[ASN][1000 genomes]
rs2643503	0.82[ASN][1000 genomes]
rs2643577	0.89[ASN][1000 genomes]
rs2697598	0.86[ASN][1000 genomes]
rs2697637	0.89[ASN][1000 genomes]
rs3108540	0.85[ASN][1000 genomes]
rs317112	0.96[ASN][1000 genomes]
rs4869152	0.96[ASN][1000 genomes]
rs4869153	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4869156	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6556953	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6874040	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6899065	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7723203	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9314193	0.89[ASN][1000 genomes]
rs9686259	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9687077	0.86[ASN][1000 genomes]
rs972717	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv432755	chr5:95987984-96657483	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	66 gene(s)	inside rSNPs	diseases
2	nsv598962	chr5:96057891-96893164	Weak transcription Strong transcription Enhancers Bivalent/Poised TSS Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
3	nsv830412	chr5:96427305-96606619	Active TSS Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers 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	18 gene(s)	inside rSNPs	diseases
4	nsv1019790	chr5:96471680-96980633	Weak transcription ZNF genes & repeats Strong transcription Active TSS Enhancers Flanking Active TSS Bivalent Enhancer Genic enhancers 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	24 gene(s)	inside rSNPs	diseases
5	nsv537812	chr5:96471680-96980633	ZNF genes & repeats Enhancers Flanking Active TSS Genic enhancers Active TSS Strong transcription Weak transcription 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	24 gene(s)	inside rSNPs	diseases
6	nsv882391	chr5:96496189-96533469	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
7	nsv882392	chr5:96496189-96546238	Flanking Active TSS Weak transcription Active TSS Enhancers Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
8	nsv882393	chr5:96496189-96567950	Flanking Bivalent TSS/Enh Strong transcription Active TSS Weak transcription Flanking Active TSS Enhancers Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:96520000-96531600	Weak transcription	HSMM	muscle
2	chr5:96520000-96534800	Weak transcription	Left Ventricle	heart
3	chr5:96521600-96530000	Weak transcription	Pancreatic Islets	Pancreatic Islet
4	chr5:96522800-96528400	Weak transcription	Primary B cells from cord blood	blood
5	chr5:96526400-96528600	Weak transcription	Sigmoid Colon	Sigmoid Colon
6	chr5:96527400-96529600	Enhancers	HUES48 Cell Line	embryonic stem cell
7	chr5:96528200-96528400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
8	chr5:96528200-96528400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
9	chr5:96528200-96528400	Flanking Active TSS	GM12878-XiMat	blood
10	chr5:96528200-96528600	Enhancers	ES-I3 Cell Line	embryonic stem cell
11	chr5:96528200-96528600	Enhancers	HUES6 Cell Line	embryonic stem cell
12	chr5:96528200-96528800	Enhancers	ES-WA7 Cell Line	embryonic stem cell
13	chr5:96528200-96529200	Enhancers	iPS-15b Cell Line	embryonic stem cell
14	chr5:96528200-96529200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
15	chr5:96528200-96529400	Genic enhancers	Primary B cells from peripheral blood	blood
16	chr5:96528200-96529400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
17	chr5:96528200-96529400	Enhancers	HMEC	breast
18	chr5:96528200-96529400	Enhancers	NHEK	skin
19	chr5:96528200-96529600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
20	chr5:96528200-96531800	Flanking Active TSS	Dnd41	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links