Variant report

Variant	rs12669172
Chromosome Location	chr7:33425553-33425554
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 31 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10245418	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10252552	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10259674	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10267370	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10276929	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12666595	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12666825	1.00[ASN][1000 genomes]
rs12666901	1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12666955	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12666965	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12667607	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12668060	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12669656	1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12669847	1.00[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12669848	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12670789	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12671882	0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12672071	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12672496	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12673004	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3779240	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57415509	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs58749439	1.00[AFR][1000 genomes];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs60809075	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs60878395	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6969260	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6974593	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]

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	nsv606610	chr7:33218763-33486316	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv1016416	chr7:33241443-33559477	Enhancers Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv916660	chr7:33272493-33506384	Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	nsv830944	chr7:33389892-33549882	Weak transcription Strong transcription ZNF genes & repeats Enhancers Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:60 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:33389000-33437400	Weak transcription	Liver	Liver
2	chr7:33394400-33427800	Weak transcription	HUES64 Cell Line	embryonic stem cell
3	chr7:33403000-33427400	Weak transcription	Primary T helper cells PMA-I stimulated	--
4	chr7:33403400-33437800	Weak transcription	Brain Substantia Nigra	brain
5	chr7:33403800-33430400	Weak transcription	Brain Hippocampus Middle	brain
6	chr7:33404000-33433000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
7	chr7:33407000-33429600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
8	chr7:33408200-33431000	Weak transcription	Primary hematopoietic stem cells	blood
9	chr7:33408200-33434600	Weak transcription	HUES48 Cell Line	embryonic stem cell
10	chr7:33408600-33434400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
11	chr7:33411800-33431000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
12	chr7:33412200-33433200	Weak transcription	Psoas Muscle	Psoas
13	chr7:33417200-33427800	Weak transcription	Muscle Satellite Cultured Cells	--
14	chr7:33417200-33430400	Weak transcription	Skeletal Muscle Male	skeletal muscle
15	chr7:33417400-33429600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
16	chr7:33418000-33438600	Weak transcription	Skeletal Muscle Female	skeletal muscle
17	chr7:33418200-33436400	Weak transcription	Sigmoid Colon	Sigmoid Colon
18	chr7:33418600-33434800	Weak transcription	Fetal Kidney	kidney
19	chr7:33418800-33429200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
20	chr7:33419000-33436800	Weak transcription	Rectal Mucosa Donor 29	rectum
21	chr7:33419600-33427800	Weak transcription	HSMMtube	muscle
22	chr7:33420000-33427600	Weak transcription	HSMM	muscle
23	chr7:33420000-33433200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
24	chr7:33420000-33435000	Weak transcription	Brain Anterior Caudate	brain
25	chr7:33420400-33425800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
26	chr7:33420400-33428000	Weak transcription	Thymus	Thymus
27	chr7:33420400-33431800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
28	chr7:33420400-33435000	Weak transcription	Brain Cingulate Gyrus	brain
29	chr7:33420400-33436400	Weak transcription	H1 Cell Line	embryonic stem cell
30	chr7:33420400-33444600	Weak transcription	Left Ventricle	heart
31	chr7:33420600-33427600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
32	chr7:33420600-33427600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
33	chr7:33420600-33427600	Weak transcription	Adipose Nuclei	Adipose
34	chr7:33420600-33428400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
35	chr7:33420600-33429600	Weak transcription	H9 Cell Line	embryonic stem cell
36	chr7:33420600-33431800	Weak transcription	Aorta	Aorta
37	chr7:33420600-33433200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
38	chr7:33420600-33435000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
39	chr7:33420600-33435200	Weak transcription	Fetal Muscle Trunk	muscle
40	chr7:33420600-33437800	Weak transcription	Primary T helper cells fromperipheralblood	blood
41	chr7:33420600-33449200	Weak transcription	Ovary	ovary
42	chr7:33420800-33429000	Weak transcription	Rectal Smooth Muscle	rectum
43	chr7:33420800-33430200	Weak transcription	Stomach Smooth Muscle	stomach
44	chr7:33420800-33432800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
45	chr7:33420800-33434600	Weak transcription	Fetal Muscle Leg	muscle
46	chr7:33420800-33435000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
47	chr7:33420800-33435000	Weak transcription	Fetal Lung	lung
48	chr7:33420800-33437400	Weak transcription	Fetal Intestine Large	intestine
49	chr7:33420800-33437800	Weak transcription	Duodenum Smooth Muscle	Duodenum
50	chr7:33421000-33439800	Weak transcription	Fetal Stomach	stomach

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links