Variant report

Variant	rs55846419
Chromosome Location	chr2:46686352-46686353
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr2:46673194..46677108-chr2:46685172..46689084,4	MCF-7	breast:
2	chr2:46524557..46526648-chr2:46685519..46687325,2	MCF-7	breast:
3	chr2:46654324..46657409-chr2:46685735..46688601,3	K562	blood:

Variant related genes	Relation type
ENSG00000116016	Chromatin interaction
ENSG00000241791	Chromatin interaction
ENSG00000187600	Chromatin interaction

Extended variants
information (count: 41 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs55680262	0.83[AFR][1000 genomes]
rs55768552	1.00[AFR][1000 genomes]
rs55770522	0.83[AFR][1000 genomes]
rs55857444	0.83[AFR][1000 genomes]
rs55909007	1.00[AFR][1000 genomes]
rs56194963	0.83[AFR][1000 genomes]
rs56352638	1.00[AFR][1000 genomes]
rs57134112	1.00[AFR][1000 genomes]
rs57134197	0.83[AFR][1000 genomes]
rs57326818	1.00[AFR][1000 genomes]
rs57453502	0.83[AFR][1000 genomes]
rs57823622	1.00[AFR][1000 genomes]
rs58143719	0.83[AFR][1000 genomes]
rs58202206	1.00[AFR][1000 genomes]
rs58395052	0.83[AFR][1000 genomes]
rs58639867	1.00[AFR][1000 genomes]
rs60086470	0.83[AFR][1000 genomes]
rs60100807	0.83[AFR][1000 genomes]
rs60337602	1.00[AFR][1000 genomes]
rs61599272	1.00[AFR][1000 genomes]
rs73929724	1.00[AFR][1000 genomes]
rs73929725	1.00[AFR][1000 genomes]
rs73929727	0.86[AFR][1000 genomes]
rs73929728	1.00[AFR][1000 genomes]
rs73929729	1.00[AFR][1000 genomes]
rs73929730	1.00[AFR][1000 genomes]
rs73929731	0.83[AFR][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	nsv1012446	chr2:45921682-46737036	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	62 gene(s)	inside rSNPs	diseases
2	esv2757795	chr2:46532812-46874151	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
3	esv2759046	chr2:46532812-46874151	Active TSS Enhancers Flanking Active TSS Strong transcription Weak transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
4	esv34650	chr2:46605659-46818992	Enhancers Weak transcription ZNF genes & repeats Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
5	esv2756919	chr2:46614235-46756431	Weak transcription Enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	35 gene(s)	inside rSNPs	diseases
6	nsv437435	chr2:46636967-46763587	Active TSS Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	33 gene(s)	inside rSNPs	diseases
7	esv34937	chr2:46651624-46818586	Enhancers Weak transcription Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
8	nsv581745	chr2:46660445-46693963	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
9	nsv9702	chr2:46668106-46745740	Enhancers Active TSS Weak transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
10	nsv817828	chr2:46670146-46739157	Weak transcription Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
11	nsv1014425	chr2:46670179-47033417	Enhancers Strong transcription Flanking Active TSS Weak transcription Active TSS Genic enhancers 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	31 gene(s)	inside rSNPs	diseases
12	nsv535678	chr2:46670179-47033417	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
13	nsv873996	chr2:46670941-47065227	Strong transcription Enhancers Weak transcription Active TSS ZNF genes & repeats Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
14	nsv519216	chr2:46683683-46723219	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:32 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:46667000-46688400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr2:46674600-46686600	Weak transcription	NHLF	lung
3	chr2:46679000-46687400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr2:46679600-46686400	Weak transcription	Right Atrium	heart
5	chr2:46680600-46687200	Weak transcription	Stomach Mucosa	stomach
6	chr2:46682800-46686400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
7	chr2:46684000-46688000	Weak transcription	K562	blood
8	chr2:46684200-46687000	Weak transcription	Pancreas	Pancrea
9	chr2:46684200-46687400	Weak transcription	Placenta	Placenta
10	chr2:46684800-46687600	Enhancers	HepG2	liver
11	chr2:46685400-46686400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
12	chr2:46685600-46686600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
13	chr2:46685800-46686800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
14	chr2:46685800-46688400	Enhancers	Stomach Smooth Muscle	stomach
15	chr2:46685800-46688600	Enhancers	Fetal Stomach	stomach
16	chr2:46686000-46687200	Enhancers	Brain Cingulate Gyrus	brain
17	chr2:46686000-46687200	Enhancers	Brain Substantia Nigra	brain
18	chr2:46686000-46687400	Enhancers	Brain Anterior Caudate	brain
19	chr2:46686000-46687400	Enhancers	Brain Hippocampus Middle	brain
20	chr2:46686000-46687800	Enhancers	Fetal Kidney	kidney
21	chr2:46686000-46688200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
22	chr2:46686000-46688600	Enhancers	Fetal Lung	lung
23	chr2:46686000-46689000	Enhancers	Adipose Nuclei	Adipose
24	chr2:46686200-46686400	Enhancers	Colonic Mucosa	Colon
25	chr2:46686200-46686400	Enhancers	Left Ventricle	heart
26	chr2:46686200-46686400	Enhancers	Ovary	ovary
27	chr2:46686200-46686400	Enhancers	Rectal Smooth Muscle	rectum
28	chr2:46686200-46686400	Enhancers	Spleen	Spleen
29	chr2:46686200-46687200	Enhancers	Brain Angular Gyrus	brain
30	chr2:46686200-46687200	Enhancers	Brain Inferior Temporal Lobe	brain
31	chr2:46686200-46688600	Enhancers	Fetal Muscle Leg	muscle
32	chr2:46686200-46688800	Enhancers	Fetal Muscle Trunk	muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links