Variant report

Variant	rs10873171
Chromosome Location	chr14:64339648-64339649
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr14:64332982..64334814-chr14:64338976..64341175,2	MCF-7	breast:

Extended variants
information (count: 47 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs1000904	0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11158515	0.87[CHB][hapmap]
rs11158518	0.87[CHB][hapmap]
rs11626911	0.83[CHB][hapmap]
rs11628650	0.87[CHB][hapmap]
rs12431956	0.87[CHB][hapmap]
rs12435958	0.96[CEU][hapmap];1.00[CHB][hapmap];0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12436656	0.84[ASN][1000 genomes]
rs12587452	0.91[ASN][1000 genomes]
rs12893838	0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2151763	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2357001	0.96[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs34486661	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35234298	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs36050513	0.93[ASN][1000 genomes]
rs4899121	0.80[EUR][1000 genomes]
rs4902249	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4902251	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4902252	0.84[EUR][1000 genomes]
rs4902253	0.87[CHB][hapmap]
rs55925976	0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs61985747	0.94[ASN][1000 genomes]
rs6573532	0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6573533	0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6573535	0.93[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6573536	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7144370	0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7145302	0.96[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7145810	0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7149609	0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7150540	0.83[EUR][1000 genomes]
rs7153723	0.86[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs7158960	0.89[ASN][1000 genomes]
rs7161586	0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs8004989	0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs8009846	0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs8010094	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs8010312	0.83[CHB][hapmap]
rs8013611	0.96[CHB][hapmap]
rs8017009	0.87[CHB][hapmap]
rs945031	0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs951250	0.93[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs998242	0.87[CHB][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	nsv915909	chr14:63620440-64560369	Active TSS Genic enhancers Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	67 gene(s)	inside rSNPs	diseases
2	nsv1038825	chr14:64109441-64491720	Enhancers Flanking Active TSS Weak transcription Strong transcription Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
3	nsv1037140	chr14:64248421-64442980	Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS Bivalent Enhancer 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	10 gene(s)	inside rSNPs	diseases
4	nsv542119	chr14:64248421-64442980	Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:87 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:64321200-64340600	Weak transcription	H9 Cell Line	embryonic stem cell
2	chr14:64321400-64350200	Weak transcription	Fetal Stomach	stomach
3	chr14:64322800-64340400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
4	chr14:64322800-64340600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr14:64323200-64340200	Weak transcription	Left Ventricle	heart
6	chr14:64323200-64340400	Weak transcription	Spleen	Spleen
7	chr14:64324600-64341400	Weak transcription	HSMM	muscle
8	chr14:64327200-64340600	Weak transcription	Right Ventricle	heart
9	chr14:64327400-64355200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
10	chr14:64327600-64360000	Weak transcription	Gastric	stomach
11	chr14:64327800-64342200	Weak transcription	Esophagus	oesophagus
12	chr14:64330200-64343600	Weak transcription	Brain Germinal Matrix	brain
13	chr14:64331200-64356400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
14	chr14:64331400-64339800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
15	chr14:64331400-64340400	Weak transcription	Fetal Heart	heart
16	chr14:64331400-64340800	Weak transcription	Cortex derived primary cultured neurospheres	brain
17	chr14:64331400-64342200	Weak transcription	NHLF	lung
18	chr14:64331600-64340400	Weak transcription	HUES6 Cell Line	embryonic stem cell
19	chr14:64331600-64340400	Weak transcription	Right Atrium	heart
20	chr14:64331600-64340800	Weak transcription	Skeletal Muscle Male	skeletal muscle
21	chr14:64331600-64341000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
22	chr14:64331600-64341800	Weak transcription	NHDF-Ad	bronchial
23	chr14:64331800-64341400	Enhancers	Primary T cells fromperipheralblood	blood
24	chr14:64333000-64341000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
25	chr14:64333200-64340400	Weak transcription	HUES64 Cell Line	embryonic stem cell
26	chr14:64333200-64340400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
27	chr14:64333400-64340400	Weak transcription	HUES48 Cell Line	embryonic stem cell
28	chr14:64333400-64340600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
29	chr14:64335200-64340400	Weak transcription	Lung	lung
30	chr14:64335200-64340400	Weak transcription	Ovary	ovary
31	chr14:64335200-64341800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
32	chr14:64335200-64342200	Weak transcription	Placenta	Placenta
33	chr14:64335200-64342200	Weak transcription	Pancreas	Pancrea
34	chr14:64335200-64360000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
35	chr14:64335400-64340800	Weak transcription	Rectal Smooth Muscle	rectum
36	chr14:64335600-64340400	Weak transcription	Fetal Kidney	kidney
37	chr14:64335600-64340600	Weak transcription	Fetal Lung	lung
38	chr14:64335800-64342000	Weak transcription	Colon Smooth Muscle	Colon
39	chr14:64336000-64340200	Weak transcription	Adipose Nuclei	Adipose
40	chr14:64336000-64340600	Weak transcription	Rectal Mucosa Donor 31	rectum
41	chr14:64336800-64340200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
42	chr14:64336800-64341400	Weak transcription	Muscle Satellite Cultured Cells	--
43	chr14:64336800-64362800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
44	chr14:64337000-64339800	Weak transcription	NHEK	skin
45	chr14:64337000-64340000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
46	chr14:64337000-64340000	Weak transcription	HMEC	breast
47	chr14:64337000-64340400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
48	chr14:64337000-64340400	Weak transcription	Sigmoid Colon	Sigmoid Colon
49	chr14:64337000-64340400	Weak transcription	Skeletal Muscle Female	skeletal muscle
50	chr14:64337000-64340600	Weak transcription	Breast Myoepithelial Primary Cells	Breast

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links