Variant report

Variant	rs6805675
Chromosome Location	chr3:105518384-105518385
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 62 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:60)

rs_ID	r²[population]
rs1020327	1.00[AMR][1000 genomes]
rs1025885	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1025886	1.00[YRI][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1036877	1.00[AMR][1000 genomes]
rs1039545	1.00[AMR][1000 genomes]
rs10933831	0.89[YRI][hapmap];0.83[AFR][1000 genomes]
rs10933832	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1348348	1.00[AMR][1000 genomes]
rs1443099	1.00[AMR][1000 genomes]
rs1443107	1.00[AMR][1000 genomes]
rs1503922	1.00[AMR][1000 genomes]
rs1548056	1.00[AMR][1000 genomes]
rs1561920	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1822348	1.00[AMR][1000 genomes]
rs1838045	1.00[AMR][1000 genomes]
rs1867428	1.00[AMR][1000 genomes]
rs1867429	1.00[AMR][1000 genomes]
rs1963622	1.00[AMR][1000 genomes]
rs1992520	1.00[AMR][1000 genomes]
rs2083759	0.85[AFR][1000 genomes]
rs2120102	0.88[YRI][hapmap];0.85[AFR][1000 genomes]
rs2197351	1.00[AMR][1000 genomes]
rs2221379	1.00[AMR][1000 genomes]
rs3862049	1.00[AMR][1000 genomes]
rs4243428	1.00[AMR][1000 genomes]
rs4282093	1.00[AMR][1000 genomes]
rs4613490	1.00[AMR][1000 genomes]
rs4894838	0.85[AFR][1000 genomes]
rs4894945	1.00[AMR][1000 genomes]
rs4894947	1.00[AMR][1000 genomes]
rs4894948	1.00[AMR][1000 genomes]
rs4894959	1.00[AMR][1000 genomes]
rs4894961	1.00[AMR][1000 genomes]
rs6437615	1.00[AMR][1000 genomes]
rs6437617	1.00[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6437619	0.89[YRI][hapmap]
rs6437625	1.00[AMR][1000 genomes]
rs6765716	1.00[AMR][1000 genomes]
rs6768096	1.00[AMR][1000 genomes]
rs6791888	0.91[AFR][1000 genomes]
rs6804286	1.00[AMR][1000 genomes]
rs7622735	1.00[AMR][1000 genomes]
rs7643647	1.00[AMR][1000 genomes]
rs7649437	1.00[AMR][1000 genomes]
rs769317	0.89[YRI][hapmap];0.83[AFR][1000 genomes]
rs9288816	1.00[AMR][1000 genomes]
rs9288819	1.00[AMR][1000 genomes]
rs9288820	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs976961	1.00[AMR][1000 genomes]
rs976962	1.00[AMR][1000 genomes]
rs9809911	1.00[AMR][1000 genomes]
rs9811870	1.00[AMR][1000 genomes]
rs981479	1.00[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9830539	1.00[AMR][1000 genomes]
rs9831221	1.00[AMR][1000 genomes]
rs9833645	1.00[AMR][1000 genomes]
rs9838768	1.00[AMR][1000 genomes]
rs9859644	1.00[AMR][1000 genomes]
rs9866153	1.00[YRI][hapmap];0.88[AFR][1000 genomes]
rs9872290	1.00[AMR][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	nsv877309	chr3:105373836-105542435	Weak transcription Strong transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
2	esv2755185	chr3:105378310-105597310	Strong transcription Weak transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:88 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:105483200-105555200	Weak transcription	Placenta	Placenta
2	chr3:105486800-105519000	Weak transcription	Esophagus	oesophagus
3	chr3:105489600-105525400	Weak transcription	Fetal Intestine Small	intestine
4	chr3:105505000-105527800	Weak transcription	Pancreas	Pancrea
5	chr3:105505000-105548200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr3:105509800-105527800	Weak transcription	Rectal Mucosa Donor 31	rectum
7	chr3:105510600-105521200	Weak transcription	Fetal Brain Male	brain
8	chr3:105511400-105566400	Weak transcription	Aorta	Aorta
9	chr3:105511800-105520400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
10	chr3:105512000-105520600	Weak transcription	H9 Cell Line	embryonic stem cell
11	chr3:105512200-105519000	Weak transcription	Psoas Muscle	Psoas
12	chr3:105512200-105519000	Weak transcription	Right Atrium	heart
13	chr3:105512200-105519200	Weak transcription	Skeletal Muscle Female	skeletal muscle
14	chr3:105512200-105520200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
15	chr3:105512200-105520400	Weak transcription	Brain Cingulate Gyrus	brain
16	chr3:105512200-105527200	Weak transcription	Rectal Mucosa Donor 29	rectum
17	chr3:105512200-105534200	Weak transcription	Left Ventricle	heart
18	chr3:105512400-105524400	Weak transcription	NHLF	lung
19	chr3:105512600-105520400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
20	chr3:105512600-105524000	Weak transcription	HSMMtube	muscle
21	chr3:105512600-105524600	Weak transcription	Colon Smooth Muscle	Colon
22	chr3:105512600-105525200	Weak transcription	HSMM	muscle
23	chr3:105514400-105521600	Enhancers	Primary B cells from peripheral blood	blood
24	chr3:105515200-105518800	Enhancers	Primary T helper cells PMA-I stimulated	--
25	chr3:105515400-105528200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
26	chr3:105515400-105539000	Weak transcription	Fetal Muscle Trunk	muscle
27	chr3:105515800-105521600	Enhancers	Primary T killer memory cells from peripheral blood	blood
28	chr3:105516000-105518400	Enhancers	Primary T helper naive cells from peripheral blood	blood
29	chr3:105516000-105519400	Enhancers	Primary hematopoietic stem cells short term culture	blood
30	chr3:105516000-105521600	Enhancers	Primary T helper naive cells fromperipheralblood	blood
31	chr3:105516000-105521600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
32	chr3:105516200-105522200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
33	chr3:105516400-105518400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
34	chr3:105516400-105519400	Enhancers	iPS-18 Cell Line	embryonic stem cell
35	chr3:105516400-105521000	Enhancers	Primary T cells from cord blood	blood
36	chr3:105516400-105521800	Enhancers	Primary T helper cells fromperipheralblood	blood
37	chr3:105516600-105518400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
38	chr3:105516600-105518400	Enhancers	HUES6 Cell Line	embryonic stem cell
39	chr3:105516600-105518400	Enhancers	Dnd41	blood
40	chr3:105516600-105519400	Enhancers	ES-I3 Cell Line	embryonic stem cell
41	chr3:105516600-105519400	Enhancers	iPS-15b Cell Line	embryonic stem cell
42	chr3:105516600-105519800	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
43	chr3:105516600-105522000	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
44	chr3:105516600-105523000	Enhancers	HUES64 Cell Line	embryonic stem cell
45	chr3:105516800-105518400	Enhancers	H1 Cell Line	embryonic stem cell
46	chr3:105516800-105519800	Enhancers	iPS-20b Cell Line	embryonic stem cell
47	chr3:105517200-105518400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
48	chr3:105517200-105518400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
49	chr3:105517200-105518400	Enhancers	Fetal Lung	lung
50	chr3:105517200-105519400	Enhancers	Muscle Satellite Cultured Cells	--

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