Variant report

Variant	rs6491347
Chromosome Location	chr13:97930890-97930891
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr13:97872309..97876314-chr13:97928603..97932246,5	MCF-7	breast:
2	chr13:97910306..97912437-chr13:97930415..97933005,2	MCF-7	breast:
3	chr13:97930811..97933716-chr13:97934774..97936909,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000139793	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs1410759	0.86[CHB][hapmap]
rs1974085	0.86[CHD][hapmap]
rs1974086	0.86[CHB][hapmap];0.80[CHD][hapmap]
rs4441122	0.81[CHB][hapmap];0.87[CHD][hapmap]
rs4612924	0.81[CHB][hapmap];0.82[CHD][hapmap]
rs4771991	0.82[CHB][hapmap]
rs4771992	0.81[CHB][hapmap];0.87[CHD][hapmap]
rs7333604	0.80[EUR][1000 genomes]
rs9513222	0.89[CEU][hapmap];0.88[MEX][hapmap];0.82[TSI][hapmap];0.87[EUR][1000 genomes]
rs9513224	0.81[CHB][hapmap];0.81[EUR][1000 genomes]
rs9513225	0.86[GIH][hapmap]
rs9513226	0.82[EUR][1000 genomes]
rs9516886	0.89[CEU][hapmap];0.91[CHB][hapmap];0.88[CHD][hapmap];0.93[GIH][hapmap];0.80[JPT][hapmap];0.92[MEX][hapmap];0.87[TSI][hapmap];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9516887	0.89[CEU][hapmap];0.91[CHB][hapmap];0.88[CHD][hapmap];0.91[GIH][hapmap];0.80[JPT][hapmap];0.92[MEX][hapmap];0.83[TSI][hapmap];0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9516888	0.89[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9516900	0.81[CHB][hapmap]
rs9556695	0.81[CEU][hapmap];0.91[CHB][hapmap];0.80[JPT][hapmap];0.86[EUR][1000 genomes];0.81[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	nsv1045777	chr13:97875574-97955134	Enhancers Weak transcription Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
2	nsv832694	chr13:97930561-98137882	ZNF genes & repeats Weak transcription Strong transcription Enhancers Flanking Active TSS 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	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:110 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:97910600-97935000	Weak transcription	Colonic Mucosa	Colon
2	chr13:97914200-97960200	Weak transcription	Fetal Brain Male	brain
3	chr13:97919000-97935000	Weak transcription	Gastric	stomach
4	chr13:97920000-97931200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr13:97920400-97932200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr13:97921400-97932800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
7	chr13:97921400-97934800	Weak transcription	Cortex derived primary cultured neurospheres	brain
8	chr13:97921600-97932800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
9	chr13:97922000-97932200	Weak transcription	Thymus	Thymus
10	chr13:97922000-97933200	Weak transcription	Spleen	Spleen
11	chr13:97924800-97936200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
12	chr13:97925200-97936400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
13	chr13:97925400-97933000	Weak transcription	HUES6 Cell Line	embryonic stem cell
14	chr13:97925600-97931000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
15	chr13:97925600-97935600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
16	chr13:97925800-97932200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
17	chr13:97925800-97936600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
18	chr13:97925800-97987200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
19	chr13:97926000-97933000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
20	chr13:97926800-97932200	Weak transcription	Esophagus	oesophagus
21	chr13:97926800-97932800	Weak transcription	Pancreas	Pancrea
22	chr13:97926800-97932800	Weak transcription	Right Atrium	heart
23	chr13:97926800-97935000	Weak transcription	Lung	lung
24	chr13:97927800-97931000	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
25	chr13:97927800-97931800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
26	chr13:97928600-97931200	Enhancers	Placenta Amnion	Placenta Amnion
27	chr13:97928600-97933400	Enhancers	Primary T helper cells PMA-I stimulated	--
28	chr13:97929000-97937600	Enhancers	Colon Smooth Muscle	Colon
29	chr13:97929000-97947200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
30	chr13:97929200-97931200	Weak transcription	Placenta	Placenta
31	chr13:97929200-97936400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
32	chr13:97929400-97931200	Weak transcription	HSMMtube	muscle
33	chr13:97929400-97932800	Weak transcription	Psoas Muscle	Psoas
34	chr13:97929400-97934800	Enhancers	Brain Anterior Caudate	brain
35	chr13:97929400-97935000	Weak transcription	Aorta	Aorta
36	chr13:97929400-97955000	Weak transcription	Fetal Muscle Trunk	muscle
37	chr13:97929600-97931000	Weak transcription	Primary T cells from cord blood	blood
38	chr13:97929600-97931000	Weak transcription	Primary hematopoietic stem cells	blood
39	chr13:97929600-97931000	Weak transcription	Duodenum Mucosa	Duodenum
40	chr13:97929600-97931000	Weak transcription	Ovary	ovary
41	chr13:97929600-97931200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
42	chr13:97929600-97931200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
43	chr13:97929600-97931200	Weak transcription	Pancreatic Islets	Pancreatic Islet
44	chr13:97929600-97932400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
45	chr13:97929600-97932600	Weak transcription	Primary T helper cells fromperipheralblood	blood
46	chr13:97929600-97932800	Weak transcription	Fetal Heart	heart
47	chr13:97929600-97932800	Enhancers	Rectal Smooth Muscle	rectum
48	chr13:97929600-97932800	Weak transcription	Right Ventricle	heart
49	chr13:97929600-97933000	Weak transcription	Primary B cells from peripheral blood	blood
50	chr13:97929600-97933000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--

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