Variant report

Variant	rs1407533
Chromosome Location	chr6:131610622-131610623
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs10484765	0.92[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12203075	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13211569	0.81[EUR][1000 genomes]
rs1358962	0.92[CEU][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1407532	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1885640	0.88[CEU][hapmap];1.00[JPT][hapmap]
rs2104209	0.88[EUR][1000 genomes]
rs2146827	0.92[ASN][1000 genomes]
rs3777478	0.88[CEU][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs3777480	0.93[CEU][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs3777483	0.92[CEU][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs3777494	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3822866	0.89[CEU][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs3850238	0.95[JPT][hapmap]
rs4327722	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4343939	0.84[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs4484548	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4897505	0.93[CEU][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs61056763	0.94[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6569737	0.86[AFR][1000 genomes];0.99[EUR][1000 genomes]
rs66827112	0.81[ASN][1000 genomes]
rs6922252	0.92[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6924196	1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs7744734	0.89[AMR][1000 genomes];0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7754788	0.95[JPT][hapmap]
rs7755640	0.92[CEU][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs7761587	0.92[CEU][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7768335	0.95[JPT][hapmap]
rs9398980	0.95[JPT][hapmap]
rs9483237	0.89[AMR][1000 genomes];0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9483239	0.89[AMR][1000 genomes];0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9483244	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9483245	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9492886	0.89[AMR][1000 genomes];0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9492894	0.82[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs9800458	0.84[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs9800571	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1032955	chr6:131298803-131818502	Active TSS Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
2	nsv538443	chr6:131298803-131818502	Active TSS Weak transcription ZNF genes & repeats Enhancers Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
3	nsv886664	chr6:131443843-131754930	Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Enhancers Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
4	nsv886665	chr6:131518894-131611309	Enhancers ZNF genes & repeats Weak transcription Strong transcription Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region miRNA target site	1 gene(s)	inside rSNPs	diseases
5	nsv830808	chr6:131521115-131735320	Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	1 gene(s)	inside rSNPs	diseases
6	nsv886666	chr6:131573433-131666295	Weak transcription Genic enhancers Enhancers Active TSS Bivalent Enhancer Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	Chromatin interactive region lncRNA miRNA target site	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:62 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:131571800-131614400	Weak transcription	Gastric	stomach
2	chr6:131572200-131613000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
3	chr6:131587400-131614400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr6:131591000-131614800	Weak transcription	Fetal Muscle Trunk	muscle
5	chr6:131597200-131613200	Weak transcription	Ovary	ovary
6	chr6:131601200-131612000	Weak transcription	HSMMtube	muscle
7	chr6:131602800-131612800	Weak transcription	HepG2	liver
8	chr6:131602800-131613200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
9	chr6:131603200-131613000	Weak transcription	H1 Cell Line	embryonic stem cell
10	chr6:131603200-131613200	Weak transcription	Left Ventricle	heart
11	chr6:131603200-131613800	Weak transcription	Right Atrium	heart
12	chr6:131603200-131614600	Weak transcription	Lung	lung
13	chr6:131603400-131611600	Weak transcription	Primary hematopoietic stem cells	blood
14	chr6:131603400-131612000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
15	chr6:131603400-131612200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
16	chr6:131603400-131613000	Weak transcription	Adipose Nuclei	Adipose
17	chr6:131603400-131613400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
18	chr6:131603400-131613400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
19	chr6:131603400-131613400	Weak transcription	Psoas Muscle	Psoas
20	chr6:131603400-131613600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
21	chr6:131603800-131613400	Weak transcription	Primary B cells from peripheral blood	blood
22	chr6:131603800-131613400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
23	chr6:131603800-131613600	Weak transcription	Primary B cells from cord blood	blood
24	chr6:131604000-131613600	Weak transcription	Brain Cingulate Gyrus	brain
25	chr6:131604200-131613400	Weak transcription	Brain Hippocampus Middle	brain
26	chr6:131604200-131613800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
27	chr6:131604800-131612000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
28	chr6:131604800-131613000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
29	chr6:131605200-131612800	Weak transcription	HUES64 Cell Line	embryonic stem cell
30	chr6:131605200-131613200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
31	chr6:131605400-131613200	Weak transcription	Fetal Heart	heart
32	chr6:131605400-131613400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
33	chr6:131605600-131613000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
34	chr6:131606200-131612800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
35	chr6:131606200-131613400	Weak transcription	Brain Anterior Caudate	brain
36	chr6:131606400-131612200	Weak transcription	HUES6 Cell Line	embryonic stem cell
37	chr6:131606400-131612200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
38	chr6:131606400-131613000	Weak transcription	Primary T helper cells PMA-I stimulated	--
39	chr6:131606400-131613000	Weak transcription	Primary T helper cells fromperipheralblood	blood
40	chr6:131606400-131613000	Weak transcription	Rectal Mucosa Donor 31	rectum
41	chr6:131606400-131613200	Weak transcription	Primary T cells fromperipheralblood	blood
42	chr6:131606400-131613200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
43	chr6:131606400-131613400	Weak transcription	Fetal Thymus	thymus
44	chr6:131606400-131613400	Weak transcription	Rectal Mucosa Donor 29	rectum
45	chr6:131606400-131613600	Weak transcription	Sigmoid Colon	Sigmoid Colon
46	chr6:131606400-131614600	Weak transcription	Duodenum Mucosa	Duodenum
47	chr6:131606600-131610800	Weak transcription	Fetal Brain Female	brain
48	chr6:131607000-131612800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
49	chr6:131607000-131613000	Weak transcription	H9 Cell Line	embryonic stem cell
50	chr6:131607400-131612600	Weak transcription	HUES48 Cell Line	embryonic stem cell

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