Variant report

Variant	rs4896738
Chromosome Location	chr6:145045325-145045326
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 44 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs11969314	0.93[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes]
rs13219714	0.88[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs1406045	0.83[CHB][hapmap];0.89[JPT][hapmap]
rs1590054	0.83[CHB][hapmap];0.89[JPT][hapmap]
rs1969517	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2328571	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4131500	0.93[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes]
rs4243473	0.87[AMR][1000 genomes]
rs4243474	0.85[CHB][hapmap]
rs4272231	0.85[CHB][hapmap]
rs4295503	0.92[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes]
rs4305737	0.92[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.83[AFR][1000 genomes];0.94[AMR][1000 genomes];0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4360150	0.88[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs4385333	0.86[CHB][hapmap]
rs4446580	0.93[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs4463276	0.92[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.92[AMR][1000 genomes];0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4479957	0.92[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes]
rs4538733	0.82[AMR][1000 genomes]
rs4571589	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes]
rs4896740	0.92[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes]
rs6570641	0.85[ASN][1000 genomes]
rs6570644	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes]
rs6901197	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes]
rs6905526	0.89[CEU][hapmap];0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs6906020	0.93[CHB][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap];0.87[AMR][1000 genomes]
rs6906948	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6924941	0.91[ASN][1000 genomes]
rs7750326	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7756909	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes]
rs7758369	0.85[CHB][hapmap]
rs7758449	0.84[CHB][hapmap]
rs9283116	0.92[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes]
rs9285504	0.93[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes]
rs9321988	0.87[AFR][1000 genomes];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9321990	0.92[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes]
rs9373425	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9390197	0.83[CHB][hapmap];0.89[JPT][hapmap]
rs9390201	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9390208	0.92[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes]
rs9403587	0.84[CHB][hapmap]

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	nsv1016747	chr6:144917411-145599874	Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Weak transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
2	nsv1032838	chr6:144978504-145110121	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv830833	chr6:145001310-145201143	Strong transcription Weak transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
4	nsv1021098	chr6:145017386-145106441	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:83 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:144996600-145052400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
2	chr6:145004400-145047000	Weak transcription	HSMMtube	muscle
3	chr6:145009000-145047000	Weak transcription	Esophagus	oesophagus
4	chr6:145010600-145047000	Weak transcription	H1 Cell Line	embryonic stem cell
5	chr6:145011000-145052600	Weak transcription	Ovary	ovary
6	chr6:145011800-145065600	Weak transcription	Pancreas	Pancrea
7	chr6:145011800-145090200	Weak transcription	Skeletal Muscle Male	skeletal muscle
8	chr6:145011800-145096600	Weak transcription	Thymus	Thymus
9	chr6:145012000-145047000	Weak transcription	Gastric	stomach
10	chr6:145012000-145055600	Weak transcription	Spleen	Spleen
11	chr6:145012400-145053000	Weak transcription	Fetal Stomach	stomach
12	chr6:145014200-145047000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
13	chr6:145018200-145047200	Weak transcription	Rectal Mucosa Donor 31	rectum
14	chr6:145018200-145052400	Weak transcription	Duodenum Mucosa	Duodenum
15	chr6:145018400-145069000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
16	chr6:145019000-145047000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
17	chr6:145019400-145052600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
18	chr6:145022000-145051400	Weak transcription	Fetal Muscle Trunk	muscle
19	chr6:145022200-145053000	Weak transcription	Fetal Intestine Small	intestine
20	chr6:145024000-145087200	Weak transcription	Psoas Muscle	Psoas
21	chr6:145024200-145047000	Weak transcription	Fetal Thymus	thymus
22	chr6:145024600-145051400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
23	chr6:145025000-145047200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
24	chr6:145025000-145050200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
25	chr6:145027400-145052400	Weak transcription	Liver	Liver
26	chr6:145030000-145047000	Weak transcription	Lung	lung
27	chr6:145030000-145047000	Weak transcription	Sigmoid Colon	Sigmoid Colon
28	chr6:145030200-145051000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
29	chr6:145030200-145052400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
30	chr6:145030200-145052600	Weak transcription	Aorta	Aorta
31	chr6:145030200-145052600	Weak transcription	Fetal Intestine Large	intestine
32	chr6:145031600-145050600	Weak transcription	Primary hematopoietic stem cells	blood
33	chr6:145032400-145047000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
34	chr6:145033800-145046600	Weak transcription	Fetal Heart	heart
35	chr6:145035800-145052600	Weak transcription	Fetal Lung	lung
36	chr6:145036800-145046800	Weak transcription	Fetal Kidney	kidney
37	chr6:145036800-145047000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
38	chr6:145037200-145052400	Weak transcription	HUVEC	blood vessel
39	chr6:145037400-145046400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
40	chr6:145038600-145052200	Weak transcription	Adipose Nuclei	Adipose
41	chr6:145038600-145062200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
42	chr6:145039600-145052200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
43	chr6:145039800-145052400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
44	chr6:145040000-145051400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
45	chr6:145040000-145052400	Weak transcription	NHDF-Ad	bronchial
46	chr6:145040000-145094600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
47	chr6:145040000-145114600	Weak transcription	NHLF	lung
48	chr6:145040200-145046600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
49	chr6:145040200-145046600	Weak transcription	NHEK	skin
50	chr6:145040200-145046800	Weak transcription	HMEC	breast

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