Variant report

Variant	rs3794097
Chromosome Location	chr11:35300905-35300906
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:1)
CpG islands
(count:0)
Chromatin interactive
region (count:5)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:1 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr11:35300841-35301795	HepG2	liver:	n/a	n/a

No data

(count:5 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr11:35295515..35301483-chr11:35383053..35389477,19	MCF-7	breast:
2	chr11:35295688..35300934-chr11:35309144..35319083,18	MCF-7	breast:
3	chr11:35296358..35301253-chr11:35383072..35388147,10	MCF-7	breast:
4	chr11:35296687..35299158-chr11:35300780..35302460,2	K562	blood:
5	chr11:35295369..35301669-chr11:35315160..35319353,7	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000255004	TF binding region

Extended variants
information (count: 71 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:69)

rs_ID	r²[population]
rs1042113	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.97[TSI][hapmap];0.92[AMR][1000 genomes];0.82[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10444271	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];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10488816	0.80[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10488817	0.80[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.81[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10488818	0.80[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.93[TSI][hapmap];0.92[AMR][1000 genomes];0.81[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10836366	0.92[AMR][1000 genomes];0.82[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10836368	0.94[AMR][1000 genomes];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11033050	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11033053	0.92[AMR][1000 genomes];0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11033054	0.92[AMR][1000 genomes];0.81[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11033055	0.92[AMR][1000 genomes];0.81[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11033056	0.92[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs11033057	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11033058	0.92[AMR][1000 genomes];0.81[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11033060	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11033063	0.94[AMR][1000 genomes];0.80[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11033064	1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.80[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11033071	0.84[CHB][hapmap];0.90[JPT][hapmap];0.91[LWK][hapmap];0.95[MEX][hapmap];1.00[YRI][hapmap];0.81[AMR][1000 genomes]
rs11033080	0.84[JPT][hapmap]
rs12146523	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12418812	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12574069	0.84[CHB][hapmap];0.90[JPT][hapmap]
rs12576364	0.92[AMR][1000 genomes];0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12576375	0.92[AMR][1000 genomes];0.80[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs16927292	0.89[CEU][hapmap];0.92[CHB][hapmap];0.93[CHD][hapmap];0.92[GIH][hapmap];1.00[JPT][hapmap];0.95[LWK][hapmap];1.00[MEX][hapmap];0.92[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2236272	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2273687	0.81[AMR][1000 genomes]
rs3794087	0.92[CHB][hapmap];0.82[CHD][hapmap];1.00[JPT][hapmap];0.95[LWK][hapmap];0.95[MEX][hapmap];0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs3794088	0.94[AMR][1000 genomes];0.80[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3794093	0.92[AMR][1000 genomes];0.81[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3794094	0.87[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs3812778	0.92[MKK][hapmap];1.00[YRI][hapmap]
rs3829266	0.94[AMR][1000 genomes];0.80[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3847612	0.84[CHB][hapmap];0.90[JPT][hapmap];0.91[LWK][hapmap];0.95[MEX][hapmap];0.81[AMR][1000 genomes]
rs3847613	0.84[CHB][hapmap];0.90[JPT][hapmap];0.84[MEX][hapmap];0.81[AMR][1000 genomes]
rs3847620	0.84[JPT][hapmap]
rs3891872	0.94[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3895234	0.94[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs3911898	0.89[JPT][hapmap]
rs4083481	0.84[CHB][hapmap];0.90[JPT][hapmap];1.00[YRI][hapmap];0.81[AMR][1000 genomes]
rs41352148	0.80[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.93[TSI][hapmap];0.92[AMR][1000 genomes];0.81[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs41427147	0.80[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];0.86[TSI][hapmap]
rs41525047	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4756207	0.80[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.82[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4756210	0.81[AMR][1000 genomes]
rs4756211	0.84[CHB][hapmap];0.90[JPT][hapmap];0.95[MEX][hapmap]
rs4756219	0.84[JPT][hapmap]
rs4756220	0.84[JPT][hapmap]
rs4756221	0.84[JPT][hapmap]
rs55709010	0.81[AMR][1000 genomes]
rs55834429	0.81[AMR][1000 genomes]
rs56043665	0.94[AMR][1000 genomes];0.80[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs56140126	0.94[AMR][1000 genomes];0.80[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs56402269	0.94[AMR][1000 genomes];0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs61880962	0.93[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs61882290	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs61882291	0.92[AMR][1000 genomes];0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs61882292	0.92[AMR][1000 genomes];0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs61882293	0.94[AMR][1000 genomes];0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7111043	0.92[AMR][1000 genomes];0.81[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7111055	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7111179	0.86[AMR][1000 genomes];0.80[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7129693	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs72638196	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs72638197	0.92[AMR][1000 genomes];0.80[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs752949	0.85[CEU][hapmap];0.84[CHB][hapmap];0.93[CHD][hapmap];0.92[GIH][hapmap];0.95[JPT][hapmap];0.91[MEX][hapmap];1.00[TSI][hapmap];0.94[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs7927975	0.94[AMR][1000 genomes];0.80[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7934047	0.84[JPT][hapmap]
rs7940391	0.92[AMR][1000 genomes];0.94[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	nsv1045837	chr11:34893992-35395190	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
2	nsv832120	chr11:35277410-35490304	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:45 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:35265800-35305800	Weak transcription	HepG2	liver
2	chr11:35270400-35307000	Weak transcription	Fetal Brain Male	brain
3	chr11:35283000-35302000	Weak transcription	Brain Inferior Temporal Lobe	brain
4	chr11:35285800-35308800	Weak transcription	Gastric	stomach
5	chr11:35296600-35301200	Enhancers	Pancreas	Pancrea
6	chr11:35297200-35302200	Weak transcription	Skeletal Muscle Female	skeletal muscle
7	chr11:35297400-35302200	Weak transcription	Adipose Nuclei	Adipose
8	chr11:35297600-35302200	Weak transcription	Fetal Stomach	stomach
9	chr11:35297600-35302200	Weak transcription	Left Ventricle	heart
10	chr11:35297600-35302200	Weak transcription	Right Atrium	heart
11	chr11:35297600-35302600	Weak transcription	Muscle Satellite Cultured Cells	--
12	chr11:35297600-35303000	Weak transcription	HSMMtube	muscle
13	chr11:35297600-35303400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
14	chr11:35297800-35303200	Weak transcription	Rectal Smooth Muscle	rectum
15	chr11:35298000-35317200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
16	chr11:35298200-35302400	Weak transcription	Aorta	Aorta
17	chr11:35298200-35303600	Weak transcription	A549	lung
18	chr11:35298200-35303800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
19	chr11:35298200-35326000	Weak transcription	Brain Substantia Nigra	brain
20	chr11:35298400-35301200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
21	chr11:35298400-35302200	Weak transcription	NHDF-Ad	bronchial
22	chr11:35298400-35302200	Weak transcription	NHLF	lung
23	chr11:35298400-35302600	Weak transcription	Thymus	Thymus
24	chr11:35298400-35303600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
25	chr11:35298400-35303600	Weak transcription	Osteobl	bone
26	chr11:35298600-35302000	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
27	chr11:35298600-35303800	Weak transcription	Monocytes-CD14+_RO01746	blood
28	chr11:35298800-35302200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
29	chr11:35298800-35302400	Weak transcription	Stomach Smooth Muscle	stomach
30	chr11:35298800-35303800	Weak transcription	Stomach Mucosa	stomach
31	chr11:35298800-35304000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
32	chr11:35298800-35306000	Weak transcription	Brain Anterior Caudate	brain
33	chr11:35299000-35302600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
34	chr11:35299000-35303800	Weak transcription	Hela-S3	cervix
35	chr11:35299000-35308800	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
36	chr11:35299000-35326600	Weak transcription	Brain Hippocampus Middle	brain
37	chr11:35299400-35301000	Weak transcription	Brain Cingulate Gyrus	brain
38	chr11:35299600-35303600	Weak transcription	Esophagus	oesophagus
39	chr11:35299600-35303800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
40	chr11:35299600-35309800	Strong transcription	Cortex derived primary cultured neurospheres	brain
41	chr11:35299800-35328600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
42	chr11:35300400-35301800	Strong transcription	Liver	Liver
43	chr11:35300400-35309800	Strong transcription	Fetal Brain Female	brain
44	chr11:35300800-35301200	Strong transcription	Brain Angular Gyrus	brain
45	chr11:35300800-35303000	Strong transcription	Brain Germinal Matrix	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links