Variant report

Variant	rs2873788
Chromosome Location	chr3:119378977-119378978
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:119371913..119374680-chr3:119377229..119379559,2	MCF-7	breast:
2	chr3:119377678..119379207-chr3:119382196..119384974,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000121577	Chromatin interaction

Extended variants
information (count: 9 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs13062697	0.82[EUR][1000 genomes]
rs13091305	1.00[ASW][hapmap];1.00[CEU][hapmap];0.97[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs13323756	0.82[TSI][hapmap]
rs2293235	1.00[ASW][hapmap];1.00[LWK][hapmap];0.94[MKK][hapmap];0.82[TSI][hapmap];1.00[YRI][hapmap];0.85[AFR][1000 genomes]
rs6794067	0.82[TSI][hapmap];0.82[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3487859	chr3:118570588-119419623	Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
2	esv3487860	chr3:118570588-119419623	Strong transcription Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
3	esv1831824	chr3:119263607-119402474	Weak transcription Active TSS Flanking Active TSS Strong transcription Enhancers Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
4	nsv1014394	chr3:119360506-119412275	Weak transcription Flanking Active TSS Enhancers Active TSS Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:73 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:119354000-119387600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
2	chr3:119356200-119389000	Weak transcription	Brain Cingulate Gyrus	brain
3	chr3:119356800-119390000	Weak transcription	Brain Inferior Temporal Lobe	brain
4	chr3:119356800-119391800	Weak transcription	Brain Substantia Nigra	brain
5	chr3:119356800-119391800	Weak transcription	Sigmoid Colon	Sigmoid Colon
6	chr3:119357200-119383800	Weak transcription	Primary B cells from cord blood	blood
7	chr3:119357800-119386400	Weak transcription	Rectal Mucosa Donor 31	rectum
8	chr3:119358000-119390600	Weak transcription	Brain Anterior Caudate	brain
9	chr3:119358000-119391800	Weak transcription	Colonic Mucosa	Colon
10	chr3:119361200-119394400	Weak transcription	Brain Angular Gyrus	brain
11	chr3:119362400-119387400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
12	chr3:119362600-119383800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
13	chr3:119363200-119389400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
14	chr3:119363200-119389800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
15	chr3:119365200-119387400	Weak transcription	Liver	Liver
16	chr3:119367200-119381800	Weak transcription	Fetal Lung	lung
17	chr3:119367600-119389200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
18	chr3:119367600-119391200	Weak transcription	Fetal Brain Female	brain
19	chr3:119367800-119385400	Weak transcription	Primary T helper cells PMA-I stimulated	--
20	chr3:119367800-119386600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
21	chr3:119367800-119388800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
22	chr3:119368000-119386000	Weak transcription	Primary T helper cells fromperipheralblood	blood
23	chr3:119368200-119388200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
24	chr3:119371600-119379200	Weak transcription	Muscle Satellite Cultured Cells	--
25	chr3:119373400-119388800	Weak transcription	Aorta	Aorta
26	chr3:119374600-119379600	ZNF genes & repeats	Fetal Heart	heart
27	chr3:119374800-119389000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
28	chr3:119375400-119381600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
29	chr3:119375800-119381400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
30	chr3:119376000-119380000	Active TSS	Colon Smooth Muscle	Colon
31	chr3:119376200-119379800	Active TSS	Duodenum Smooth Muscle	Duodenum
32	chr3:119376400-119379400	Enhancers	Primary hematopoietic stem cells short term culture	blood
33	chr3:119376800-119379800	Active TSS	Skeletal Muscle Male	skeletal muscle
34	chr3:119377200-119379400	Flanking Active TSS	Breast Myoepithelial Primary Cells	Breast
35	chr3:119377400-119387200	Weak transcription	Primary hematopoietic stem cells	blood
36	chr3:119377400-119387400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
37	chr3:119377800-119379200	Transcr. at gene 5' and 3'	Fetal Stomach	stomach
38	chr3:119378000-119379000	Enhancers	Primary monocytes fromperipheralblood	blood
39	chr3:119378000-119379000	Strong transcription	Primary T cells fromperipheralblood	blood
40	chr3:119378000-119379400	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle
41	chr3:119378200-119379000	Strong transcription	Primary B cells from peripheral blood	blood
42	chr3:119378200-119379000	Genic enhancers	Placenta	Placenta
43	chr3:119378200-119379000	Active TSS	Psoas Muscle	Psoas
44	chr3:119378200-119379200	Genic enhancers	Lung	lung
45	chr3:119378200-119379400	Strong transcription	Primary T cells from cord blood	blood
46	chr3:119378200-119379400	Active TSS	Rectal Mucosa Donor 29	rectum
47	chr3:119378200-119379600	Active TSS	Fetal Intestine Large	intestine
48	chr3:119378200-119380200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
49	chr3:119378200-119380600	Enhancers	Adipose Nuclei	Adipose
50	chr3:119378400-119379000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--

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