Variant report

Variant	rs72676275
Chromosome Location	chr1:62408764-62408765
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 34 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10489968	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1123777	1.00[ASN][1000 genomes]
rs11582438	0.91[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs11584978	1.00[ASN][1000 genomes]
rs12072694	1.00[ASN][1000 genomes]
rs12072734	1.00[ASN][1000 genomes]
rs12091611	1.00[ASN][1000 genomes]
rs1537316	1.00[ASN][1000 genomes]
rs17122925	1.00[ASN][1000 genomes]
rs17122991	1.00[ASN][1000 genomes]
rs17313153	0.82[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17385742	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs41313250	1.00[ASN][1000 genomes]
rs4915790	0.84[AFR][1000 genomes];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4915791	0.82[AFR][1000 genomes];0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4915794	1.00[ASN][1000 genomes]
rs61775625	1.00[ASN][1000 genomes]
rs61775631	1.00[ASN][1000 genomes]
rs61777667	1.00[ASN][1000 genomes]
rs61777685	1.00[ASN][1000 genomes]
rs61777687	1.00[ASN][1000 genomes]
rs72676267	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72676271	0.91[AFR][1000 genomes];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72676279	0.91[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs72676286	0.82[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7534748	1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv518627	chr1:62279594-62517947	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	nsv522020	chr1:62279594-62517947	Active TSS ZNF genes & repeats Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv531876	chr1:62302313-62504349	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
4	nsv1004446	chr1:62394631-62813533	Enhancers ZNF genes & repeats Weak transcription Bivalent/Poised TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	12 gene(s)	inside rSNPs	diseases
5	nsv534984	chr1:62394631-62813533	Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Enhancers Strong transcription ZNF genes & repeats Bivalent/Poised TSS Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	12 gene(s)	inside rSNPs	diseases
6	nsv1110	chr1:62395723-62454435	Enhancers Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
7	nsv546415	chr1:62405873-62437872	Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
8	nsv1001667	chr1:62407786-62649838	Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:52 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:62346200-62417600	Weak transcription	Rectal Smooth Muscle	rectum
2	chr1:62350600-62428200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
3	chr1:62350800-62417600	Weak transcription	Ovary	ovary
4	chr1:62353800-62408800	Weak transcription	Duodenum Smooth Muscle	Duodenum
5	chr1:62361600-62408800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr1:62372400-62408800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
7	chr1:62372400-62417600	Weak transcription	H9 Cell Line	embryonic stem cell
8	chr1:62374600-62410600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
9	chr1:62376200-62417600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr1:62380800-62410000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
11	chr1:62381000-62416000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
12	chr1:62381200-62417400	Weak transcription	Skeletal Muscle Female	skeletal muscle
13	chr1:62381200-62418400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
14	chr1:62384600-62408800	Weak transcription	Fetal Intestine Large	intestine
15	chr1:62385000-62494200	Weak transcription	Aorta	Aorta
16	chr1:62391800-62409000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
17	chr1:62392000-62408800	Weak transcription	Gastric	stomach
18	chr1:62392600-62408800	Weak transcription	Left Ventricle	heart
19	chr1:62393800-62422400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
20	chr1:62395000-62410800	Weak transcription	Liver	Liver
21	chr1:62396200-62416000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
22	chr1:62396200-62417200	Weak transcription	HMEC	breast
23	chr1:62396400-62418000	Weak transcription	Fetal Kidney	kidney
24	chr1:62400600-62417600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
25	chr1:62401400-62408800	Weak transcription	Lung	lung
26	chr1:62406000-62408800	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
27	chr1:62406600-62430200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
28	chr1:62407000-62409600	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
29	chr1:62407200-62417400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
30	chr1:62408000-62409200	Strong transcription	HUES6 Cell Line	embryonic stem cell
31	chr1:62408000-62409200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
32	chr1:62408200-62408800	Strong transcription	HUES64 Cell Line	embryonic stem cell
33	chr1:62408200-62408800	ZNF genes & repeats	ES-UCSF4 Cell Line	embryonic stem cell
34	chr1:62408200-62409200	Strong transcription	Duodenum Mucosa	Duodenum
35	chr1:62408200-62409400	Strong transcription	Sigmoid Colon	Sigmoid Colon
36	chr1:62408400-62409000	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
37	chr1:62408400-62409200	Strong transcription	Rectal Mucosa Donor 29	rectum
38	chr1:62408600-62408800	ZNF genes & repeats	Fetal Lung	lung
39	chr1:62408600-62409000	ZNF genes & repeats	HUES48 Cell Line	embryonic stem cell
40	chr1:62408600-62409000	Strong transcription	Primary T cells fromperipheralblood	blood
41	chr1:62408600-62409000	ZNF genes & repeats	Primary T helper cells PMA-I stimulated	--
42	chr1:62408600-62409000	Strong transcription	Primary T helper cells fromperipheralblood	blood
43	chr1:62408600-62409000	ZNF genes & repeats	Primary Natural Killer cells fromperipheralblood	blood
44	chr1:62408600-62409000	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
45	chr1:62408600-62409200	ZNF genes & repeats	H1 Cell Line	embryonic stem cell
46	chr1:62408600-62409200	ZNF genes & repeats	Esophagus	oesophagus
47	chr1:62408600-62409200	Strong transcription	Pancreas	Pancrea
48	chr1:62408600-62409200	Strong transcription	Rectal Mucosa Donor 31	rectum
49	chr1:62408600-62409200	ZNF genes & repeats	Stomach Mucosa	stomach
50	chr1:62408600-62409200	ZNF genes & repeats	NHEK	skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links