Variant report

Variant	rs1868094
Chromosome Location	chr2:46614463-46614464
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr2:46604849..46607852-chr2:46611035..46614942,3	K562	blood:
2	chr2:46613072..46615377-chr2:46616117..46618467,2	K562	blood:
3	chr2:46300290..46302585-chr2:46613885..46616357,2	MCF-7	breast:
4	chr2:46609393..46611243-chr2:46614056..46616065,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000171132	Chromatin interaction
ENSG00000116016	Chromatin interaction

Extended variants
information (count: 38 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs11675232	0.90[AMR][1000 genomes]
rs11675328	0.82[AFR][1000 genomes];0.93[AMR][1000 genomes]
rs11675441	0.82[CEU][hapmap];0.89[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs11678465	0.81[CEU][hapmap];0.94[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs11678817	0.80[YRI][hapmap];0.93[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs11681242	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs11686705	0.94[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11689649	0.80[EUR][1000 genomes]
rs11689694	0.80[EUR][1000 genomes]
rs11690951	0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11691694	0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs11692911	0.85[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs11693596	0.92[AMR][1000 genomes]
rs11693754	0.94[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11694193	0.82[CEU][hapmap];0.94[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs13006131	0.85[CEU][hapmap];0.89[YRI][hapmap];0.86[AFR][1000 genomes];0.90[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs13019268	0.89[YRI][hapmap]
rs1530622	1.00[CEU][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1868092	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1868093	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];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55826825	0.93[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs56161503	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59034065	0.89[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs62138871	0.92[AMR][1000 genomes]
rs7557402	0.84[CEU][hapmap];0.90[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs7567582	0.86[CEU][hapmap];0.94[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7583088	0.85[CEU][hapmap];0.94[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs7583392	0.85[CEU][hapmap];0.94[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7591548	0.93[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs7594278	0.81[CEU][hapmap];0.80[YRI][hapmap];0.94[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7598371	0.81[CEU][hapmap];0.89[YRI][hapmap];0.88[AFR][1000 genomes];0.93[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7606559	0.93[AMR][1000 genomes];0.84[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 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	nsv916169	chr2:46310963-46622603	Weak transcription Enhancers Genic enhancers Strong transcription Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
3	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
4	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
5	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
6	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

No data

Chromatin state (count:73 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:46589800-46616600	Weak transcription	Thymus	Thymus
2	chr2:46592200-46619800	Weak transcription	K562	blood
3	chr2:46592600-46616200	Strong transcription	Placenta Amnion	Placenta Amnion
4	chr2:46593600-46615400	Strong transcription	Sigmoid Colon	Sigmoid Colon
5	chr2:46594400-46615600	Strong transcription	Duodenum Mucosa	Duodenum
6	chr2:46594800-46615400	Strong transcription	Liver	Liver
7	chr2:46594800-46615600	Strong transcription	HUVEC	blood vessel
8	chr2:46595000-46616000	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
9	chr2:46601800-46616400	Genic enhancers	Placenta	Placenta
10	chr2:46602000-46616000	Strong transcription	Pancreas	Pancrea
11	chr2:46605600-46614800	Strong transcription	Rectal Mucosa Donor 29	rectum
12	chr2:46606000-46615000	Strong transcription	Right Ventricle	heart
13	chr2:46606000-46615400	Strong transcription	Left Ventricle	heart
14	chr2:46606600-46614600	Weak transcription	Cortex derived primary cultured neurospheres	brain
15	chr2:46607000-46617000	Weak transcription	Stomach Mucosa	stomach
16	chr2:46609000-46617000	Strong transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
17	chr2:46610200-46615000	Strong transcription	Spleen	Spleen
18	chr2:46610400-46615600	Weak transcription	Fetal Lung	lung
19	chr2:46611200-46616800	Weak transcription	Rectal Smooth Muscle	rectum
20	chr2:46611600-46616600	Weak transcription	Fetal Intestine Large	intestine
21	chr2:46612000-46616800	Weak transcription	Stomach Smooth Muscle	stomach
22	chr2:46612000-46620600	Weak transcription	Psoas Muscle	Psoas
23	chr2:46612000-46622400	Weak transcription	Pancreatic Islets	Pancreatic Islet
24	chr2:46612600-46614600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
25	chr2:46612600-46614600	Genic enhancers	NHEK	skin
26	chr2:46612600-46615000	Strong transcription	Fetal Stomach	stomach
27	chr2:46612600-46615600	Genic enhancers	Breast Myoepithelial Primary Cells	Breast
28	chr2:46612600-46615800	Enhancers	HMEC	breast
29	chr2:46612600-46617000	Enhancers	Primary monocytes fromperipheralblood	blood
30	chr2:46612800-46614600	Enhancers	Primary hematopoietic stem cells	blood
31	chr2:46612800-46616600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
32	chr2:46613200-46616600	Weak transcription	Ovary	ovary
33	chr2:46613200-46644200	Weak transcription	Aorta	Aorta
34	chr2:46613400-46614600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
35	chr2:46613400-46615000	Weak transcription	Small Intestine	intestine
36	chr2:46613400-46615200	Weak transcription	Fetal Intestine Small	intestine
37	chr2:46613400-46616200	Weak transcription	Fetal Muscle Leg	muscle
38	chr2:46613400-46616600	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
39	chr2:46613400-46616600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
40	chr2:46613400-46616600	Weak transcription	Gastric	stomach
41	chr2:46613400-46616800	Weak transcription	Skeletal Muscle Female	skeletal muscle
42	chr2:46613400-46617200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
43	chr2:46613400-46617400	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
44	chr2:46613400-46617400	Weak transcription	Colonic Mucosa	Colon
45	chr2:46613600-46616800	Enhancers	Primary neutrophils fromperipheralblood	blood
46	chr2:46613800-46615600	Strong transcription	Adipose Nuclei	Adipose
47	chr2:46613800-46615600	Weak transcription	Rectal Mucosa Donor 31	rectum
48	chr2:46613800-46615800	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
49	chr2:46613800-46615800	Enhancers	Brain Cingulate Gyrus	brain
50	chr2:46613800-46615800	Strong transcription	A549	lung

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