Variant report

Variant	rs7910088
Chromosome Location	chr10:116172486-116172487
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	chr10:116058474..116060652-chr10:116172090..116174186,2	MCF-7	breast:
2	chr10:116063461..116065488-chr10:116171625..116174495,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000169129	Chromatin interaction

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs11196728	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11196738	0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11196750	0.81[CEU][hapmap]
rs12354693	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12354943	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12355335	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12356147	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12357098	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12359269	0.90[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs17406965	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs41293058	0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs475150	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.83[TSI][hapmap];0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs605654	1.00[CEU][hapmap];0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs61868314	0.93[EUR][1000 genomes]
rs61868324	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs622320	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs622646	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6585277	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6585283	0.81[CEU][hapmap]
rs7069926	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7899139	0.84[JPT][hapmap]
rs7900888	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7916374	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[CHD][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];0.80[LWK][hapmap];0.89[MEX][hapmap];0.87[MKK][hapmap];1.00[TSI][hapmap];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7916796	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs941855	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.90[MEX][hapmap];0.94[TSI][hapmap];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9665297	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1037308	chr10:116141946-116519765	Weak transcription Enhancers Flanking Active TSS Genic enhancers Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
2	nsv540780	chr10:116141946-116519765	Enhancers Genic enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:38 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:116165000-116172600	Weak transcription	Pancreas	Pancrea
2	chr10:116169200-116172800	Weak transcription	NHDF-Ad	bronchial
3	chr10:116169600-116172600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr10:116169600-116177600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr10:116169800-116172600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr10:116170000-116172800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
7	chr10:116170200-116172600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
8	chr10:116171800-116173600	Enhancers	HMEC	breast
9	chr10:116172000-116172600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
10	chr10:116172000-116172600	Enhancers	Hela-S3	cervix
11	chr10:116172000-116173600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
12	chr10:116172000-116173600	Enhancers	Esophagus	oesophagus
13	chr10:116172000-116173600	Enhancers	Fetal Muscle Leg	muscle
14	chr10:116172000-116173600	Enhancers	Left Ventricle	heart
15	chr10:116172000-116173600	Enhancers	Right Atrium	heart
16	chr10:116172000-116173600	Enhancers	Spleen	Spleen
17	chr10:116172200-116172800	Enhancers	A549	lung
18	chr10:116172200-116173000	Enhancers	NHEK	skin
19	chr10:116172200-116173400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
20	chr10:116172200-116173600	Enhancers	Breast Myoepithelial Primary Cells	Breast
21	chr10:116172200-116173600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
22	chr10:116172200-116173600	Enhancers	Placenta	Placenta
23	chr10:116172200-116173600	Enhancers	Placenta Amnion	Placenta Amnion
24	chr10:116172200-116173600	Enhancers	Skeletal Muscle Male	skeletal muscle
25	chr10:116172400-116173000	Enhancers	Primary monocytes fromperipheralblood	blood
26	chr10:116172400-116173200	Enhancers	Primary hematopoietic stem cells	blood
27	chr10:116172400-116173400	Enhancers	NHLF	lung
28	chr10:116172400-116173600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
29	chr10:116172400-116173600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
30	chr10:116172400-116173600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
31	chr10:116172400-116173600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
32	chr10:116172400-116173600	Enhancers	Adipose Nuclei	Adipose
33	chr10:116172400-116173600	Enhancers	Aorta	Aorta
34	chr10:116172400-116173600	Enhancers	Fetal Lung	lung
35	chr10:116172400-116173600	Enhancers	Right Ventricle	heart
36	chr10:116172400-116173600	Enhancers	Skeletal Muscle Female	skeletal muscle
37	chr10:116172400-116173600	Enhancers	HUVEC	blood vessel
38	chr10:116172400-116173600	Enhancers	NH-A	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links