Variant report

Variant	rs72753684
Chromosome Location	chr5:52980267-52980268
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 75 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:61)

rs_ID	r²[population]
rs10036010	0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs28515477	1.00[AFR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs28708487	1.00[AFR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs28736800	1.00[AFR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs35204933	1.00[AFR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs56129546	0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs72750115	0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs72750116	0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs72750118	0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs72750119	0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs72750120	1.00[AFR][1000 genomes];0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs72750121	0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs72750122	1.00[AFR][1000 genomes];0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs72750123	0.89[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs72750126	1.00[AFR][1000 genomes];0.89[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs72750127	1.00[AFR][1000 genomes];0.89[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs72750130	1.00[AFR][1000 genomes];0.89[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs72750131	1.00[AFR][1000 genomes];0.89[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs72750134	1.00[AFR][1000 genomes];0.89[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs72750140	1.00[AFR][1000 genomes];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs72750144	0.87[AFR][1000 genomes];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs72750148	1.00[AFR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs72751827	1.00[AFR][1000 genomes];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs72751841	1.00[AFR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs72751844	1.00[AFR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs72751846	1.00[AFR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs72751847	1.00[AFR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs72751863	0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs72751866	1.00[AFR][1000 genomes];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs72751867	1.00[AFR][1000 genomes];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs72751871	1.00[AFR][1000 genomes];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs72753636	1.00[AFR][1000 genomes];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs72753638	1.00[AFR][1000 genomes];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs72753639	1.00[AFR][1000 genomes];0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs72753641	1.00[AFR][1000 genomes];0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs72753648	1.00[AFR][1000 genomes];0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs72753652	1.00[AFR][1000 genomes];0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs72753656	1.00[AFR][1000 genomes];0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs72753660	1.00[AFR][1000 genomes];0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs72753662	1.00[AFR][1000 genomes];0.99[EUR][1000 genomes]
rs72753664	1.00[AFR][1000 genomes];0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs72753670	0.87[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs72753671	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72753677	1.00[AFR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72753682	1.00[AFR][1000 genomes];0.82[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72753688	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72753689	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72753691	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72755368	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs72755378	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs72755379	1.00[AFR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs72755392	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs72755393	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs72757303	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs72757306	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs72757373	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs72757381	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs72757382	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs72757387	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs72757388	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs72757396	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][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	esv2752745	chr5:52422063-53343529	Transcr. at gene 5' and 3' ZNF genes & repeats Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
2	nsv1032632	chr5:52667145-53655624	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
3	nsv880868	chr5:52799618-53002783	Weak transcription Enhancers ZNF genes & repeats Strong transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
4	nsv880689	chr5:52847995-53002783	ZNF genes & repeats Weak transcription Active TSS Enhancers Strong transcription Flanking Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
5	nsv881604	chr5:52885100-53035301	Weak transcription Genic enhancers Enhancers Active TSS ZNF genes & repeats Strong transcription Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
6	nsv1032504	chr5:52908394-53398435	Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
7	nsv537763	chr5:52908394-53398435	Weak transcription Genic enhancers Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
8	nsv880673	chr5:52965574-53002783	Strong transcription Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Genic enhancers Active TSS	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
9	nsv881152	chr5:52965574-53028303	Weak transcription ZNF genes & repeats Strong transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
10	nsv881028	chr5:52965574-53035301	Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
11	nsv880806	chr5:52967967-53002783	ZNF genes & repeats Strong transcription Weak transcription Enhancers Genic enhancers Flanking Active TSS Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
12	nsv880377	chr5:52967967-53028303	Strong transcription Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Genic enhancers	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
13	nsv881185	chr5:52967967-53060893	Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
14	nsv830298	chr5:52973912-53193398	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:71 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:52929000-52981800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
2	chr5:52940000-52982000	Weak transcription	Skeletal Muscle Male	skeletal muscle
3	chr5:52941400-52985200	Weak transcription	Rectal Smooth Muscle	rectum
4	chr5:52945400-52980800	Weak transcription	Rectal Mucosa Donor 31	rectum
5	chr5:52945400-52981000	Weak transcription	Psoas Muscle	Psoas
6	chr5:52945400-52985000	Weak transcription	Brain Hippocampus Middle	brain
7	chr5:52945600-52980800	Weak transcription	GM12878-XiMat	blood
8	chr5:52945600-52981600	Weak transcription	Skeletal Muscle Female	skeletal muscle
9	chr5:52945600-52983000	Weak transcription	Fetal Muscle Trunk	muscle
10	chr5:52945600-52983600	Weak transcription	Fetal Thymus	thymus
11	chr5:52946800-52981400	Weak transcription	NHEK	skin
12	chr5:52955800-52982200	Weak transcription	Dnd41	blood
13	chr5:52956000-52982600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
14	chr5:52961600-52984200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
15	chr5:52961800-52989200	Weak transcription	Ovary	ovary
16	chr5:52962600-52980600	Weak transcription	Rectal Mucosa Donor 29	rectum
17	chr5:52963600-52984400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
18	chr5:52965400-52980600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
19	chr5:52968000-52980600	Weak transcription	Sigmoid Colon	Sigmoid Colon
20	chr5:52968000-52983400	Weak transcription	Duodenum Mucosa	Duodenum
21	chr5:52968600-52980800	Weak transcription	HUES48 Cell Line	embryonic stem cell
22	chr5:52970200-52984800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
23	chr5:52971400-52980600	Weak transcription	Fetal Intestine Large	intestine
24	chr5:52972600-52980800	Weak transcription	Colon Smooth Muscle	Colon
25	chr5:52973000-52983600	Weak transcription	Brain Anterior Caudate	brain
26	chr5:52974400-52983200	Weak transcription	Spleen	Spleen
27	chr5:52975400-52981000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
28	chr5:52975600-52982400	Weak transcription	Osteobl	bone
29	chr5:52976000-52982400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
30	chr5:52976400-52983000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
31	chr5:52976800-52980400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
32	chr5:52977400-52980400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
33	chr5:52977600-52981800	Weak transcription	Brain Substantia Nigra	brain
34	chr5:52978000-52980400	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
35	chr5:52978200-52980400	Strong transcription	Left Ventricle	heart
36	chr5:52978200-52980600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
37	chr5:52978200-52980800	Strong transcription	Primary B cells from peripheral blood	blood
38	chr5:52978200-52980800	Strong transcription	Liver	Liver
39	chr5:52978400-52980800	Strong transcription	Primary hematopoietic stem cells	blood
40	chr5:52978400-52985400	Weak transcription	Primary B cells from cord blood	blood
41	chr5:52978600-52980400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
42	chr5:52978600-52980400	Strong transcription	HUES64 Cell Line	embryonic stem cell
43	chr5:52978600-52980600	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
44	chr5:52978600-52981000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
45	chr5:52978600-52981200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
46	chr5:52978800-52980400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
47	chr5:52978800-52980800	Strong transcription	Stomach Smooth Muscle	stomach
48	chr5:52979000-52980600	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
49	chr5:52979000-52981200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
50	chr5:52979200-52984800	Weak transcription	Breast Myoepithelial Primary Cells	Breast

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