Variant report

Variant	rs1887872
Chromosome Location	chr9:7186222-7186223
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:7168923..7170527-chr9:7184801..7187324,2	MCF-7	breast:

Extended variants
information (count: 75 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:65)

rs_ID	r²[population]
rs1011341	0.90[CHB][hapmap];0.87[ASN][1000 genomes]
rs1041288	0.90[AMR][1000 genomes]
rs10511462	0.90[CHB][hapmap];0.87[CHD][hapmap];0.89[ASN][1000 genomes]
rs10758842	0.87[AMR][1000 genomes]
rs10815533	0.90[ASN][1000 genomes]
rs10815534	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs10976118	0.88[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs10976119	0.93[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs1887870	0.86[ASW][hapmap];0.82[YRI][hapmap];0.85[AMR][1000 genomes]
rs1887871	1.00[ASN][1000 genomes]
rs1928211	0.94[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1928212	0.98[ASN][1000 genomes]
rs1958344	0.98[ASN][1000 genomes]
rs2011128	0.93[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2014332	0.84[AMR][1000 genomes]
rs2026709	0.95[ASN][1000 genomes]
rs2094613	0.93[ASN][1000 genomes]
rs2381570	0.95[CHB][hapmap];0.86[JPT][hapmap];0.89[ASN][1000 genomes]
rs2381571	0.82[AMR][1000 genomes]
rs2494241	0.90[AMR][1000 genomes]
rs2494242	0.87[AMR][1000 genomes]
rs2770728	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2770729	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2770730	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2770731	1.00[ASN][1000 genomes]
rs2770732	0.96[ASN][1000 genomes]
rs2770733	0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2770734	0.96[ASN][1000 genomes]
rs2770736	0.97[ASN][1000 genomes]
rs2770741	1.00[ASN][1000 genomes]
rs2770742	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2770743	0.99[ASN][1000 genomes]
rs2770744	0.96[ASN][1000 genomes]
rs2770745	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2770746	0.92[ASN][1000 genomes]
rs2770747	0.92[ASN][1000 genomes]
rs2770748	0.83[AMR][1000 genomes]
rs2770756	0.93[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs2770760	0.88[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs2820910	0.88[AMR][1000 genomes]
rs2820918	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2820919	0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2820920	1.00[ASN][1000 genomes]
rs2820923	0.97[ASN][1000 genomes]
rs2820924	0.89[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs2820925	0.83[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2820926	0.98[ASN][1000 genomes]
rs2820927	0.97[ASN][1000 genomes]
rs2820928	0.97[ASN][1000 genomes]
rs2820929	0.95[ASN][1000 genomes]
rs2820930	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2820931	0.92[ASN][1000 genomes]
rs2820934	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3753002	0.86[ASN][1000 genomes]
rs3829103	0.86[AMR][1000 genomes]
rs7022054	0.95[CHB][hapmap];0.86[CHD][hapmap];0.85[ASN][1000 genomes]
rs7029684	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7036627	1.00[CEU][hapmap];0.87[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7874501	1.00[CHB][hapmap];0.94[CHD][hapmap];0.91[JPT][hapmap];0.94[ASN][1000 genomes]
rs913584	0.90[CHB][hapmap];0.86[JPT][hapmap];0.88[ASN][1000 genomes]
rs913587	1.00[CHB][hapmap];0.94[CHD][hapmap];0.81[JPT][hapmap];0.93[ASN][1000 genomes]
rs913589	1.00[CHB][hapmap];0.94[CHD][hapmap];0.95[JPT][hapmap];0.93[ASN][1000 genomes]
rs913590	0.95[CHB][hapmap];0.94[CHD][hapmap];0.95[JPT][hapmap];0.91[ASN][1000 genomes]
rs943925	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs971380	0.98[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv892166	chr9:6602821-7222495	Strong transcription Enhancers Weak transcription Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	71 gene(s)	inside rSNPs	diseases
2	nsv1023906	chr9:6731786-7372132	Weak transcription ZNF genes & repeats Enhancers Bivalent Enhancer Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
3	nsv613259	chr9:7032776-7541338	Enhancers Strong transcription Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
4	nsv1015874	chr9:7048807-7434890	Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer 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	3 gene(s)	inside rSNPs	diseases
5	nsv539971	chr9:7048807-7434890	Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Genic enhancers Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
6	nsv892192	chr9:7153009-7257340	Weak transcription Enhancers Active TSS Genic enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA miRNA target site	1 gene(s)	inside rSNPs	diseases
7	esv2758178	chr9:7175387-7482982	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
8	esv2759662	chr9:7175387-7482982	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
9	nsv1032465	chr9:7182123-7409755	Enhancers Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
10	nsv539972	chr9:7182123-7409755	Flanking Active TSS Enhancers Bivalent Enhancer Weak transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Active TSS Genic enhancers Bivalent/Poised TSS	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:39 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:7151800-7188600	Weak transcription	Colonic Mucosa	Colon
2	chr9:7171200-7188200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr9:7171200-7193000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr9:7173400-7186400	Weak transcription	Brain Cingulate Gyrus	brain
5	chr9:7175000-7191800	Weak transcription	Skeletal Muscle Female	skeletal muscle
6	chr9:7175200-7187800	Weak transcription	Ovary	ovary
7	chr9:7176400-7186600	Weak transcription	Rectal Mucosa Donor 31	rectum
8	chr9:7176400-7188000	Weak transcription	Gastric	stomach
9	chr9:7176800-7187000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
10	chr9:7179000-7186400	Weak transcription	Right Ventricle	heart
11	chr9:7183000-7191400	Weak transcription	Brain Inferior Temporal Lobe	brain
12	chr9:7185000-7186400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
13	chr9:7185000-7186400	Enhancers	Placenta	Placenta
14	chr9:7185200-7186400	Enhancers	NHLF	lung
15	chr9:7185400-7186400	Enhancers	HUES6 Cell Line	embryonic stem cell
16	chr9:7185400-7186400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
17	chr9:7185400-7186400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
18	chr9:7185400-7186400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
19	chr9:7185400-7186400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
20	chr9:7185400-7186400	Flanking Active TSS	A549	lung
21	chr9:7185400-7186400	Enhancers	HUVEC	blood vessel
22	chr9:7185400-7186400	Enhancers	NHDF-Ad	bronchial
23	chr9:7185400-7186400	Enhancers	NHEK	skin
24	chr9:7185400-7186600	Enhancers	ES-WA7 Cell Line	embryonic stem cell
25	chr9:7185400-7186600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
26	chr9:7185400-7186600	Enhancers	HMEC	breast
27	chr9:7185600-7186400	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
28	chr9:7186000-7187800	Weak transcription	H9 Cell Line	embryonic stem cell
29	chr9:7186000-7188000	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
30	chr9:7186200-7186400	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
31	chr9:7186200-7186400	ZNF genes & repeats	Primary Natural Killer cells fromperipheralblood	blood
32	chr9:7186200-7186400	Weak transcription	Cortex derived primary cultured neurospheres	brain
33	chr9:7186200-7186400	ZNF genes & repeats	Pancreas	Pancrea
34	chr9:7186200-7186600	ZNF genes & repeats	Breast Myoepithelial Primary Cells	Breast
35	chr9:7186200-7186600	ZNF genes & repeats	Primary B cells from cord blood	blood
36	chr9:7186200-7186600	ZNF genes & repeats	Brain Hippocampus Middle	brain
37	chr9:7186200-7187000	ZNF genes & repeats	ES-I3 Cell Line	embryonic stem cell
38	chr9:7186200-7187000	ZNF genes & repeats	Adipose Nuclei	Adipose
39	chr9:7186200-7192200	Weak transcription	Primary T cells from cord blood	blood

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