Variant report

Variant	rs7551942
Chromosome Location	chr1:62522284-62522285
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs11207894	0.81[EUR][1000 genomes]
rs11586551	0.81[EUR][1000 genomes]
rs12097259	0.83[ASN][1000 genomes]
rs12732781	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12750860	0.82[ASN][1000 genomes]
rs1332630	0.84[EUR][1000 genomes]
rs17122997	0.80[ASN][1000 genomes]
rs2476181	0.87[ASN][1000 genomes]
rs2476185	0.87[ASN][1000 genomes]
rs2498981	0.87[ASN][1000 genomes]
rs2498982	0.87[ASN][1000 genomes]
rs4072368	0.83[ASN][1000 genomes]
rs4316389	0.83[ASN][1000 genomes]
rs4915602	0.83[ASN][1000 genomes]
rs6689358	0.88[ASN][1000 genomes]
rs991191	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	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
2	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
3	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:49 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:62459000-62530600	Weak transcription	Primary T helper cells PMA-I stimulated	--
2	chr1:62459200-62550000	Weak transcription	Primary T cells fromperipheralblood	blood
3	chr1:62460000-62544600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
4	chr1:62469000-62533600	Weak transcription	Rectal Smooth Muscle	rectum
5	chr1:62484400-62523000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr1:62484400-62562200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
7	chr1:62494600-62524400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
8	chr1:62494600-62524400	Weak transcription	Esophagus	oesophagus
9	chr1:62495200-62544800	Weak transcription	Liver	Liver
10	chr1:62504800-62531400	Weak transcription	Aorta	Aorta
11	chr1:62507200-62523000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
12	chr1:62507200-62523600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
13	chr1:62507400-62524600	Weak transcription	HepG2	liver
14	chr1:62508200-62628400	Weak transcription	Colonic Mucosa	Colon
15	chr1:62508800-62532000	Weak transcription	Fetal Stomach	stomach
16	chr1:62511400-62531600	Weak transcription	Stomach Smooth Muscle	stomach
17	chr1:62511400-62531800	Weak transcription	NHEK	skin
18	chr1:62511600-62522600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
19	chr1:62511600-62522800	Weak transcription	HUES48 Cell Line	embryonic stem cell
20	chr1:62511600-62531200	Weak transcription	Lung	lung
21	chr1:62511800-62522600	Weak transcription	Psoas Muscle	Psoas
22	chr1:62511800-62523200	Weak transcription	Fetal Heart	heart
23	chr1:62511800-62529600	Weak transcription	Right Atrium	heart
24	chr1:62512200-62524200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
25	chr1:62514000-62522800	Weak transcription	HUES6 Cell Line	embryonic stem cell
26	chr1:62514000-62522800	Weak transcription	HUES64 Cell Line	embryonic stem cell
27	chr1:62514000-62522800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
28	chr1:62514000-62524400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
29	chr1:62515200-62523200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
30	chr1:62515400-62552400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
31	chr1:62515800-62522600	Weak transcription	Left Ventricle	heart
32	chr1:62516800-62524400	Weak transcription	Duodenum Mucosa	Duodenum
33	chr1:62518200-62531600	Weak transcription	Primary T helper cells fromperipheralblood	blood
34	chr1:62518200-62531800	Weak transcription	Rectal Mucosa Donor 29	rectum
35	chr1:62518800-62531600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
36	chr1:62518800-62532000	Weak transcription	Sigmoid Colon	Sigmoid Colon
37	chr1:62519000-62523400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
38	chr1:62519000-62530600	Weak transcription	Skeletal Muscle Male	skeletal muscle
39	chr1:62519000-62532000	Weak transcription	Fetal Intestine Large	intestine
40	chr1:62519000-62541600	Weak transcription	HMEC	breast
41	chr1:62519000-62550000	Weak transcription	Primary T cells from cord blood	blood
42	chr1:62519000-62550000	Weak transcription	Pancreas	Pancrea
43	chr1:62519000-62552000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
44	chr1:62519800-62523400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
45	chr1:62520200-62530400	Weak transcription	Skeletal Muscle Female	skeletal muscle
46	chr1:62521600-62523200	Strong transcription	Fetal Intestine Small	intestine
47	chr1:62521800-62522600	Weak transcription	H9 Cell Line	embryonic stem cell
48	chr1:62521800-62546200	Weak transcription	Rectal Mucosa Donor 31	rectum
49	chr1:62522200-62527400	Strong transcription	Breast Myoepithelial Primary Cells	Breast

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