Variant report

Variant	rs28617210
Chromosome Location	chr1:225823157-225823158
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:225797988..225799782-chr1:225821584..225823329,2	K562	blood:
2	chr1:225821477..225824756-chr1:225839362..225842752,3	MCF-7	breast:
3	chr1:225821970..225824548-chr1:226027169..226028727,2	K562	blood:

Variant related genes	Relation type
ENSG00000154380	Chromatin interaction

Extended variants
information (count: 74 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:72)

rs_ID	r²[population]
rs10429871	0.90[EUR][1000 genomes]
rs11801322	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11808089	0.85[AFR][1000 genomes]
rs12027872	0.88[EUR][1000 genomes]
rs12039453	0.90[EUR][1000 genomes]
rs1340868	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1537877	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1537878	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs16845078	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17500089	0.81[ASN][1000 genomes]
rs17500562	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17500604	0.90[ASN][1000 genomes]
rs17500639	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17500679	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17500814	0.90[ASN][1000 genomes]
rs17500944	0.90[ASN][1000 genomes]
rs17501138	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17501208	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17501249	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17501775	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17501845	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17501956	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17502068	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17502075	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17502297	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17502774	0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17502823	0.93[EUR][1000 genomes]
rs17502858	0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs17502961	0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17503792	0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17559267	0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs17559587	0.90[ASN][1000 genomes]
rs17560021	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17560215	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17560579	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17561095	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17561221	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17561228	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17561368	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17561451	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17561781	0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17562010	0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17562052	0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17568665	0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17569049	0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17569145	0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17569194	0.90[ASN][1000 genomes]
rs1832229	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1876085	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1876086	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3947140	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs55865602	0.85[AFR][1000 genomes]
rs55893672	0.81[AFR][1000 genomes]
rs57616580	0.81[AFR][1000 genomes]
rs58221350	0.81[AFR][1000 genomes]
rs59481688	0.85[AFR][1000 genomes]
rs60271197	0.86[AFR][1000 genomes]
rs60588592	0.85[AFR][1000 genomes]
rs6426081	0.91[AFR][1000 genomes]
rs6666276	0.85[AFR][1000 genomes]
rs6687755	0.86[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6687947	0.91[AFR][1000 genomes]
rs6696683	0.91[AFR][1000 genomes]
rs6698989	0.85[AFR][1000 genomes]
rs73124025	0.81[AFR][1000 genomes]
rs73125705	0.97[AFR][1000 genomes]
rs73125706	0.91[AFR][1000 genomes]
rs73125707	0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7515673	0.87[AFR][1000 genomes]
rs7531033	0.87[AFR][1000 genomes]
rs7555097	0.80[AFR][1000 genomes]
rs954615	0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv832725	chr1:225726998-225910121	Weak transcription Enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Strong transcription Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	nsv832736	chr1:225815717-225968619	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	29 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	chr1:225781000-225825400	Weak transcription	Fetal Stomach	stomach
2	chr1:225809800-225837800	Weak transcription	Pancreatic Islets	Pancreatic Islet
3	chr1:225810000-225825400	Weak transcription	NHEK	skin
4	chr1:225812800-225824400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
5	chr1:225812800-225825000	Weak transcription	Fetal Muscle Trunk	muscle
6	chr1:225813400-225824800	Weak transcription	Lung	lung
7	chr1:225813600-225837600	Weak transcription	HUVEC	blood vessel
8	chr1:225813800-225838600	Weak transcription	HMEC	breast
9	chr1:225814400-225825200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
10	chr1:225814400-225825400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
11	chr1:225814600-225835800	Weak transcription	HSMMtube	muscle
12	chr1:225815400-225823200	Weak transcription	Muscle Satellite Cultured Cells	--
13	chr1:225815400-225823800	Weak transcription	NH-A	brain
14	chr1:225815600-225825400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
15	chr1:225815600-225830000	Weak transcription	Pancreas	Pancrea
16	chr1:225815800-225823200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
17	chr1:225815800-225823400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
18	chr1:225815800-225823400	Weak transcription	Stomach Mucosa	stomach
19	chr1:225815800-225825400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
20	chr1:225815800-225839000	Weak transcription	Fetal Intestine Large	intestine
21	chr1:225816000-225825600	Weak transcription	Fetal Muscle Leg	muscle
22	chr1:225816000-225825800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
23	chr1:225816000-225825800	Weak transcription	HepG2	liver
24	chr1:225816000-225830000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
25	chr1:225816000-225832400	Weak transcription	Skeletal Muscle Female	skeletal muscle
26	chr1:225816000-225834200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
27	chr1:225816000-225838400	Weak transcription	H9 Cell Line	embryonic stem cell
28	chr1:225816000-225838600	Weak transcription	Fetal Kidney	kidney
29	chr1:225816200-225823200	Weak transcription	Brain Hippocampus Middle	brain
30	chr1:225816200-225835400	Weak transcription	Fetal Heart	heart
31	chr1:225816200-225836000	Weak transcription	Duodenum Smooth Muscle	Duodenum
32	chr1:225816200-225836600	Weak transcription	Adipose Nuclei	Adipose
33	chr1:225816800-225832000	Weak transcription	Skeletal Muscle Male	skeletal muscle
34	chr1:225817000-225825400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
35	chr1:225817000-225825400	Weak transcription	Brain Germinal Matrix	brain
36	chr1:225817200-225834000	Weak transcription	Psoas Muscle	Psoas
37	chr1:225818800-225825800	Weak transcription	A549	lung
38	chr1:225819000-225823200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
39	chr1:225819000-225823400	Weak transcription	Stomach Smooth Muscle	stomach
40	chr1:225819000-225831000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
41	chr1:225819000-225832200	Weak transcription	NHDF-Ad	bronchial
42	chr1:225819200-225823200	Weak transcription	Colon Smooth Muscle	Colon
43	chr1:225819200-225823200	Weak transcription	Rectal Smooth Muscle	rectum
44	chr1:225819200-225825400	Weak transcription	Fetal Intestine Small	intestine
45	chr1:225819200-225829600	Weak transcription	Left Ventricle	heart
46	chr1:225819200-225830000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
47	chr1:225819200-225830000	Weak transcription	Gastric	stomach
48	chr1:225819600-225823600	Weak transcription	Cortex derived primary cultured neurospheres	brain
49	chr1:225819600-225823600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
50	chr1:225819600-225825600	Weak transcription	Fetal Brain Male	brain

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