Variant report

Variant	rs1409209
Chromosome Location	chr10:4002707-4002708
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:3204922..3206523-chr10:3999897..4002754,2	K562	blood:
2	chr10:3988530..3991271-chr10:4000860..4003144,2	MCF-7	breast:
3	chr10:4002614..4004316-chr10:4008633..4010468,2	K562	blood:

Extended variants
information (count: 21 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs10904150	0.91[ASN][1000 genomes]
rs11252209	0.86[CEU][hapmap];0.80[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs11252230	0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11252236	0.82[JPT][hapmap];0.84[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs11814797	0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12217249	0.89[ASN][1000 genomes]
rs12217980	0.85[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12219083	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17136237	0.88[ASN][1000 genomes]
rs56142939	0.89[ASN][1000 genomes]
rs56154000	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs56250932	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs57872033	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs72774706	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs72774717	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs72774723	0.88[ASN][1000 genomes]
rs7900453	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7903823	0.82[JPT][hapmap];0.89[ASN][1000 genomes]

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	nsv1043680	chr10:3551191-4038002	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	69 gene(s)	inside rSNPs	diseases
2	nsv1051297	chr10:3908706-4277678	Enhancers Active TSS Weak transcription Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	13 gene(s)	inside rSNPs	diseases
3	nsv894784	chr10:3985194-4051081	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Strong transcription Genic enhancers	Chromatin interactive region lncRNA miRNA	2 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	chr10:3998000-4002800	Weak transcription	Cortex derived primary cultured neurospheres	brain
2	chr10:3998800-4003400	Weak transcription	Placenta Amnion	Placenta Amnion
3	chr10:4001200-4006000	Enhancers	Primary T cells fromperipheralblood	blood
4	chr10:4001200-4006200	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
5	chr10:4001400-4004200	Enhancers	iPS-20b Cell Line	embryonic stem cell
6	chr10:4001600-4003200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
7	chr10:4001600-4003600	Enhancers	HUES48 Cell Line	embryonic stem cell
8	chr10:4001600-4003600	Enhancers	iPS-18 Cell Line	embryonic stem cell
9	chr10:4001600-4003600	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
10	chr10:4001600-4003800	Enhancers	Primary B cells from cord blood	blood
11	chr10:4001600-4004000	Enhancers	HUES64 Cell Line	embryonic stem cell
12	chr10:4001600-4004000	Enhancers	Primary B cells from peripheral blood	blood
13	chr10:4001600-4004200	Enhancers	H1 Cell Line	embryonic stem cell
14	chr10:4001600-4004200	Flanking Active TSS	Dnd41	blood
15	chr10:4001800-4003600	Enhancers	ES-WA7 Cell Line	embryonic stem cell
16	chr10:4001800-4003600	Enhancers	HUES6 Cell Line	embryonic stem cell
17	chr10:4001800-4003600	Enhancers	iPS-15b Cell Line	embryonic stem cell
18	chr10:4001800-4004000	Enhancers	ES-I3 Cell Line	embryonic stem cell
19	chr10:4001800-4004200	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
20	chr10:4001800-4004200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
21	chr10:4001800-4004400	Enhancers	Primary T helper cells fromperipheralblood	blood
22	chr10:4001800-4004400	Enhancers	Fetal Thymus	thymus
23	chr10:4002000-4003600	Enhancers	H9 Cell Line	embryonic stem cell
24	chr10:4002000-4003600	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
25	chr10:4002000-4003600	Enhancers	Aorta	Aorta
26	chr10:4002000-4003600	Enhancers	Fetal Muscle Leg	muscle
27	chr10:4002000-4004400	Enhancers	Primary T killer naive cells fromperipheralblood	blood
28	chr10:4002000-4004400	Enhancers	Primary T killer memory cells from peripheral blood	blood
29	chr10:4002200-4004000	Enhancers	Primary T helper naive cells fromperipheralblood	blood
30	chr10:4002200-4004200	Enhancers	Primary T cells from cord blood	blood
31	chr10:4002200-4004200	Enhancers	Primary T helper cells PMA-I stimulated	--
32	chr10:4002200-4004600	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
33	chr10:4002200-4005600	Enhancers	Primary T helper naive cells from peripheral blood	blood
34	chr10:4002200-4022000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
35	chr10:4002400-4004000	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
36	chr10:4002400-4005200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
37	chr10:4002400-4005400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
38	chr10:4002400-4005400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
39	chr10:4002400-4005400	Weak transcription	NHEK	skin
40	chr10:4002600-4003000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
41	chr10:4002600-4004600	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood

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