Variant report

Variant	rs1409871
Chromosome Location	chr10:6649635-6649636
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

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

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs10904624	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10904625	0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1409875	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1576009	0.90[CHD][hapmap];0.85[ASN][1000 genomes]
rs2148719	0.82[ASN][1000 genomes]
rs6602064	0.88[CHB][hapmap];0.85[CHD][hapmap];0.85[GIH][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1053440	chr10:6354798-6669469	Enhancers Flanking Active TSS Strong transcription Weak transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	32 gene(s)	inside rSNPs	diseases
2	nsv1047309	chr10:6495583-6714060	Weak transcription Strong transcription Enhancers Bivalent/Poised TSS Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
3	nsv437095	chr10:6649064-6666823	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:41 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:6642400-6650400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
2	chr10:6642800-6651600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
3	chr10:6644400-6650400	Weak transcription	Primary hematopoietic stem cells	blood
4	chr10:6644600-6650400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
5	chr10:6645400-6650600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
6	chr10:6645600-6650000	Weak transcription	Brain Germinal Matrix	brain
7	chr10:6645600-6650400	Weak transcription	H9 Cell Line	embryonic stem cell
8	chr10:6645800-6650600	Weak transcription	H1 Cell Line	embryonic stem cell
9	chr10:6646400-6650400	Weak transcription	HUES6 Cell Line	embryonic stem cell
10	chr10:6646600-6652600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
11	chr10:6648000-6649800	Enhancers	Primary T helper naive cells from peripheral blood	blood
12	chr10:6648000-6649800	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
13	chr10:6648200-6649800	Enhancers	Primary T cells fromperipheralblood	blood
14	chr10:6648200-6649800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
15	chr10:6648200-6649800	Genic enhancers	Primary T regulatory cells fromperipheralblood	blood
16	chr10:6648200-6649800	Enhancers	Primary T killer memory cells from peripheral blood	blood
17	chr10:6648200-6650000	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
18	chr10:6648600-6649800	Enhancers	Primary T killer naive cells fromperipheralblood	blood
19	chr10:6648800-6649800	Enhancers	Fetal Thymus	thymus
20	chr10:6648800-6650000	Enhancers	Thymus	Thymus
21	chr10:6649000-6649800	Genic enhancers	Primary T cells from cord blood	blood
22	chr10:6649000-6650200	Genic enhancers	Primary T helper cells PMA-I stimulated	--
23	chr10:6649000-6650800	Enhancers	Brain Angular Gyrus	brain
24	chr10:6649000-6650800	Enhancers	Brain Anterior Caudate	brain
25	chr10:6649000-6650800	Enhancers	Fetal Muscle Leg	muscle
26	chr10:6649200-6649800	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
27	chr10:6649200-6650000	Genic enhancers	Primary T helper cells fromperipheralblood	blood
28	chr10:6649200-6650600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
29	chr10:6649200-6650600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
30	chr10:6649200-6650800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
31	chr10:6649200-6650800	Enhancers	Brain Hippocampus Middle	brain
32	chr10:6649200-6650800	Enhancers	Brain Substantia Nigra	brain
33	chr10:6649200-6651200	Strong transcription	Skeletal Muscle Female	skeletal muscle
34	chr10:6649400-6649800	Active TSS	Brain Inferior Temporal Lobe	brain
35	chr10:6649400-6650200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
36	chr10:6649400-6650800	Enhancers	Brain Cingulate Gyrus	brain
37	chr10:6649400-6650800	Enhancers	NHEK	skin
38	chr10:6649400-6651600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
39	chr10:6649400-6652600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
40	chr10:6649400-6653000	Weak transcription	Dnd41	blood
41	chr10:6649600-6650600	Enhancers	Fetal Lung	lung

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