Variant report

Variant	rs9609882
Chromosome Location	chr22:34247917-34247918
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr22:34245347..34248923-chr22:34315491..34319689,7	MCF-7	breast:
2	chr22:34247616..34248584-chr22:34315645..34316533,2	MCF-7	breast:
3	chr22:34246562..34250566-chr22:34253925..34258689,11	MCF-7	breast:

Variant related genes	Relation type
ENSG00000133424	Chromatin interaction
ENSG00000273082	Chromatin interaction

Extended variants
information (count: 34 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs1009730	0.95[CEU][hapmap];1.00[CHB][hapmap];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs13056358	0.84[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs13057617	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13058568	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1547409	0.95[CEU][hapmap];1.00[CHB][hapmap];0.84[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1807710	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2018292	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs34780334	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs35709129	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs496956	1.00[CHB][hapmap]
rs8138735	0.95[CEU][hapmap];1.00[CHB][hapmap];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9607079	0.80[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9607080	1.00[CHB][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9607086	0.90[CEU][hapmap];0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9609876	0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9609877	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9609878	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9609879	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9609881	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9609883	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][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	nsv934109	chr22:33722066-34339500	Flanking Active TSS Weak transcription Enhancers Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	7 gene(s)	inside rSNPs	diseases
2	esv2763261	chr22:33831348-34288389	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	6 gene(s)	inside rSNPs	diseases
3	nsv1057450	chr22:33928913-34849012	Enhancers Weak transcription Bivalent/Poised TSS Active TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
4	nsv914990	chr22:34090440-34373293	Weak transcription Flanking Active TSS Active TSS Enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	nsv914991	chr22:34106384-34293516	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
6	nsv1056553	chr22:34116979-34286191	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
7	nsv914992	chr22:34135007-34283144	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
8	nsv524156	chr22:34145596-34260738	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
9	nsv529886	chr22:34153740-34258847	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
10	nsv1061736	chr22:34178034-34394918	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Active TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
11	nsv544689	chr22:34178034-34394918	Enhancers Active TSS Weak transcription Flanking Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
12	nsv1066419	chr22:34231732-34553006	Active TSS Genic enhancers Flanking Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
13	nsv544690	chr22:34231732-34553006	Flanking Active TSS Weak transcription Active TSS Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
14	esv3343210	chr22:34236744-34404210	Flanking Active TSS Weak transcription Genic enhancers Enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:81 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr22:34238400-34249000	Weak transcription	Aorta	Aorta
2	chr22:34243200-34248800	Enhancers	ES-I3 Cell Line	embryonic stem cell
3	chr22:34243200-34250800	Enhancers	iPS-15b Cell Line	embryonic stem cell
4	chr22:34243800-34248000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
5	chr22:34244600-34249000	Weak transcription	Stomach Smooth Muscle	stomach
6	chr22:34244800-34249600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr22:34245800-34249600	Enhancers	Fetal Intestine Large	intestine
8	chr22:34246000-34248400	Enhancers	Sigmoid Colon	Sigmoid Colon
9	chr22:34246000-34248600	Enhancers	Fetal Lung	lung
10	chr22:34246000-34249600	Enhancers	Fetal Intestine Small	intestine
11	chr22:34246200-34248000	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
12	chr22:34246200-34249000	Enhancers	Rectal Mucosa Donor 29	rectum
13	chr22:34246200-34249200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
14	chr22:34246200-34249200	Enhancers	Duodenum Mucosa	Duodenum
15	chr22:34246200-34249200	Enhancers	Stomach Mucosa	stomach
16	chr22:34246200-34249600	Enhancers	Fetal Heart	heart
17	chr22:34246400-34248600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
18	chr22:34246400-34249000	Weak transcription	Brain Angular Gyrus	brain
19	chr22:34246400-34249200	Weak transcription	Pancreas	Pancrea
20	chr22:34246600-34248200	Enhancers	Brain Germinal Matrix	brain
21	chr22:34246800-34248200	Enhancers	H9 Cell Line	embryonic stem cell
22	chr22:34246800-34248400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
23	chr22:34246800-34249200	Enhancers	NHLF	lung
24	chr22:34246800-34249400	Enhancers	Psoas Muscle	Psoas
25	chr22:34246800-34249600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
26	chr22:34247000-34248000	Enhancers	Primary B cells from peripheral blood	blood
27	chr22:34247000-34248000	Enhancers	Brain Anterior Caudate	brain
28	chr22:34247000-34248000	Enhancers	Right Ventricle	heart
29	chr22:34247000-34248000	Enhancers	NH-A	brain
30	chr22:34247000-34248200	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
31	chr22:34247000-34248200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
32	chr22:34247000-34248200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
33	chr22:34247000-34248200	Enhancers	NHEK	skin
34	chr22:34247000-34248400	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
35	chr22:34247000-34249400	Enhancers	Rectal Smooth Muscle	rectum
36	chr22:34247000-34249600	Enhancers	Cortex derived primary cultured neurospheres	brain
37	chr22:34247200-34248000	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
38	chr22:34247200-34248000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
39	chr22:34247200-34248000	Enhancers	Right Atrium	heart
40	chr22:34247200-34248200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
41	chr22:34247200-34248200	Enhancers	HUES6 Cell Line	embryonic stem cell
42	chr22:34247200-34248600	Enhancers	Skeletal Muscle Male	skeletal muscle
43	chr22:34247200-34249200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
44	chr22:34247200-34249200	Enhancers	Skeletal Muscle Female	skeletal muscle
45	chr22:34247200-34249400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
46	chr22:34247200-34249400	Weak transcription	Spleen	Spleen
47	chr22:34247400-34248000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
48	chr22:34247400-34248000	Enhancers	Brain Hippocampus Middle	brain
49	chr22:34247400-34248000	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
50	chr22:34247400-34248200	Enhancers	GM12878-XiMat	blood

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