Variant report

Variant	rs28362406
Chromosome Location	chr2:10582307-10582308
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:9)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:9 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr2:10408398..10410082-chr2:10581938..10584140,2	K562	blood:
2	chr2:10259839..10264771-chr2:10582056..10590038,19	K562	blood:
3	chr2:10579988..10583029-chr2:10585606..10587424,3	MCF-7	breast:
4	chr2:10274887..10276601-chr2:10582184..10584969,2	K562	blood:
5	chr2:10581035..10582598-chr2:10587510..10589157,2	MCF-7	breast:
6	chr2:10581677..10583716-chr2:10618210..10620359,2	K562	blood:
7	chr2:10572413..10575727-chr2:10580317..10584324,3	MCF-7	breast:
8	chr2:10257984..10265070-chr2:10582045..10589780,17	K562	blood:
9	chr2:10581730..10583279-chr2:10645120..10646926,2	K562	blood:

No data

Variant related genes	Relation type
ENSG00000206633	Chromatin interaction
ENSG00000272524	Chromatin interaction
ENSG00000171848	Chromatin interaction
ENSG00000257135	Chromatin interaction
ENSG00000115758	Chromatin interaction

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs10170147	1.00[EUR][1000 genomes]
rs10189026	1.00[EUR][1000 genomes]
rs10203520	1.00[EUR][1000 genomes]
rs10203529	1.00[EUR][1000 genomes]
rs10490729	0.88[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs11897672	1.00[EUR][1000 genomes]
rs11903106	1.00[EUR][1000 genomes]
rs11904157	1.00[EUR][1000 genomes]
rs11904263	1.00[EUR][1000 genomes]
rs13401475	0.88[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16856239	0.91[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16856397	1.00[EUR][1000 genomes]
rs1804032	1.00[ASN][1000 genomes]
rs28362383	0.88[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs28362407	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28362418	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs55955247	1.00[ASN][1000 genomes]
rs58248202	1.00[EUR][1000 genomes]
rs59876692	1.00[EUR][1000 genomes]
rs61684351	1.00[EUR][1000 genomes]
rs6738288	0.91[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73163017	1.00[EUR][1000 genomes]
rs73917006	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv530829	chr2:10357105-10655131	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	57 gene(s)	inside rSNPs	diseases
2	nsv873643	chr2:10535481-10583160	Weak transcription Strong transcription Flanking Active TSS Enhancers Genic enhancers Bivalent Enhancer ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
3	nsv873645	chr2:10537347-10612091	Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	49 gene(s)	inside rSNPs	diseases
4	nsv1007185	chr2:10540386-10791743	Weak transcription Genic enhancers Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
5	nsv873646	chr2:10550517-10612091	Weak transcription Enhancers Bivalent Enhancer Bivalent/Poised TSS Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	47 gene(s)	inside rSNPs	diseases
6	esv1840383	chr2:10569021-10588903	Active TSS Weak transcription Enhancers Bivalent Enhancer Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	34 gene(s)	inside rSNPs	diseases
7	nsv873647	chr2:10576424-10597858	Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer Weak transcription Enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	45 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:10573000-10587400	Weak transcription	Right Atrium	heart
2	chr2:10573800-10586800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr2:10577200-10587800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
4	chr2:10577600-10584200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
5	chr2:10578000-10584600	Strong transcription	Fetal Brain Female	brain
6	chr2:10578200-10585200	Strong transcription	Brain Germinal Matrix	brain
7	chr2:10578400-10585000	Strong transcription	Thymus	Thymus
8	chr2:10578400-10585400	Strong transcription	Fetal Intestine Small	intestine
9	chr2:10578600-10584200	Strong transcription	Primary B cells from peripheral blood	blood
10	chr2:10578600-10584400	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
11	chr2:10578600-10584600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr2:10578600-10585000	Strong transcription	Monocytes-CD14+_RO01746	blood
13	chr2:10578600-10585200	Strong transcription	HSMMtube	muscle
14	chr2:10578600-10585400	Strong transcription	Fetal Muscle Trunk	muscle
15	chr2:10578600-10585600	Strong transcription	A549	lung
16	chr2:10578800-10584800	Strong transcription	NHLF	lung
17	chr2:10578800-10585000	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
18	chr2:10578800-10585000	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
19	chr2:10578800-10585000	Strong transcription	Gastric	stomach
20	chr2:10578800-10585200	Strong transcription	Muscle Satellite Cultured Cells	--
21	chr2:10578800-10585200	Strong transcription	Duodenum Mucosa	Duodenum
22	chr2:10578800-10585200	Strong transcription	Fetal Stomach	stomach
23	chr2:10578800-10585200	Strong transcription	Rectal Mucosa Donor 29	rectum
24	chr2:10578800-10585400	Strong transcription	Osteobl	bone
25	chr2:10578800-10585600	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
26	chr2:10578800-10585600	Strong transcription	Primary T cells from cord blood	blood
27	chr2:10579000-10583400	Strong transcription	GM12878-XiMat	blood
28	chr2:10579000-10584400	Strong transcription	Primary T helper cells PMA-I stimulated	--
29	chr2:10579000-10584600	Strong transcription	Primary monocytes fromperipheralblood	blood
30	chr2:10579000-10584600	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
31	chr2:10579000-10584800	Strong transcription	Dnd41	blood
32	chr2:10579000-10585000	Strong transcription	Esophagus	oesophagus
33	chr2:10579000-10585000	Strong transcription	Rectal Mucosa Donor 31	rectum
34	chr2:10579000-10585000	Strong transcription	Spleen	Spleen
35	chr2:10579000-10585000	Strong transcription	NHEK	skin
36	chr2:10579000-10585200	Strong transcription	Brain Inferior Temporal Lobe	brain
37	chr2:10579000-10585200	Strong transcription	Sigmoid Colon	Sigmoid Colon
38	chr2:10579000-10585200	Strong transcription	HepG2	liver
39	chr2:10579000-10585400	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
40	chr2:10579000-10585400	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
41	chr2:10579000-10585400	Strong transcription	Fetal Intestine Large	intestine
42	chr2:10579000-10585600	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
43	chr2:10579000-10585600	Strong transcription	Primary hematopoietic stem cells short term culture	blood
44	chr2:10579200-10584600	Strong transcription	K562	blood
45	chr2:10579200-10584800	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
46	chr2:10579200-10585000	Strong transcription	Ovary	ovary
47	chr2:10579200-10585000	Strong transcription	NH-A	brain
48	chr2:10579200-10585200	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
49	chr2:10579200-10585200	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
50	chr2:10579200-10585200	Strong transcription	NHDF-Ad	bronchial

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