Variant report

Variant	rs17258608
Chromosome Location	chr10:4172259-4172260
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:4170365..4172316-chr10:4322695..4325438,2	MCF-7	breast:
2	chr10:3825405..3829399-chr10:4168357..4172262,5	MCF-7	breast:
3	chr10:4164939..4167456-chr10:4170244..4172717,2	MCF-7	breast:
4	chr10:4170399..4173353-chr10:4195678..4198644,2	K562	blood:
5	chr10:4101159..4103691-chr10:4170864..4173275,2	MCF-7	breast:
6	chr10:3827534..3829286-chr10:4172120..4173887,2	MCF-7	breast:
7	chr10:3817511..3819980-chr10:4171499..4173614,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000067082	Chromatin interaction

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs10508275	1.00[ASW][hapmap];0.87[CEU][hapmap]
rs10751962	0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10795130	0.86[ASN][1000 genomes]
rs10795138	0.92[EUR][1000 genomes]
rs10904194	0.90[ASN][1000 genomes]
rs10904195	0.84[JPT][hapmap]
rs11252360	0.96[EUR][1000 genomes]
rs11252361	0.96[EUR][1000 genomes]
rs11252362	0.96[EUR][1000 genomes]
rs11252363	1.00[CEU][hapmap];1.00[TSI][hapmap];0.96[EUR][1000 genomes]
rs11252364	1.00[CEU][hapmap];1.00[TSI][hapmap];0.96[EUR][1000 genomes]
rs12243807	0.85[CEU][hapmap]
rs17257066	1.00[CEU][hapmap]
rs17342732	1.00[CEU][hapmap]
rs1923403	0.82[AMR][1000 genomes]
rs7079146	0.83[CHD][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs72776531	0.94[EUR][1000 genomes]
rs72776532	0.94[EUR][1000 genomes]
rs72776537	0.96[EUR][1000 genomes]
rs72776538	1.00[EUR][1000 genomes]
rs9732075	1.00[CEU][hapmap];1.00[EUR][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	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
2	nsv831772	chr10:4039292-4212218	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:56 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:4163000-4173400	Weak transcription	NHLF	lung
2	chr10:4167200-4174200	Weak transcription	Pancreas	Pancrea
3	chr10:4169400-4173400	Enhancers	Primary monocytes fromperipheralblood	blood
4	chr10:4169400-4175200	Enhancers	Primary B cells from peripheral blood	blood
5	chr10:4169600-4172400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
6	chr10:4169600-4172600	Enhancers	Primary neutrophils fromperipheralblood	blood
7	chr10:4169600-4172600	Enhancers	Primary hematopoietic stem cells short term culture	blood
8	chr10:4169600-4172800	Enhancers	Primary B cells from cord blood	blood
9	chr10:4169600-4172800	Enhancers	HUVEC	blood vessel
10	chr10:4169600-4173200	Enhancers	Primary hematopoietic stem cells	blood
11	chr10:4169600-4173200	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
12	chr10:4170200-4172600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
13	chr10:4170600-4172400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
14	chr10:4170600-4172600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr10:4170600-4172600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
16	chr10:4170600-4172800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
17	chr10:4170800-4172400	Weak transcription	Psoas Muscle	Psoas
18	chr10:4170800-4172600	Weak transcription	Primary T cells from cord blood	blood
19	chr10:4170800-4172600	Weak transcription	Primary T helper cells PMA-I stimulated	--
20	chr10:4170800-4172800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
21	chr10:4170800-4172800	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
22	chr10:4170800-4172800	Weak transcription	Duodenum Mucosa	Duodenum
23	chr10:4170800-4173000	Weak transcription	HUES64 Cell Line	embryonic stem cell
24	chr10:4170800-4173200	Weak transcription	Rectal Mucosa Donor 29	rectum
25	chr10:4170800-4174400	Weak transcription	Duodenum Smooth Muscle	Duodenum
26	chr10:4171000-4172400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
27	chr10:4171000-4172400	Weak transcription	Adipose Nuclei	Adipose
28	chr10:4171000-4172400	Weak transcription	Spleen	Spleen
29	chr10:4171000-4172600	Weak transcription	Skeletal Muscle Male	skeletal muscle
30	chr10:4171000-4172800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
31	chr10:4171000-4172800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
32	chr10:4171000-4172800	Weak transcription	Rectal Mucosa Donor 31	rectum
33	chr10:4171000-4173000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
34	chr10:4171000-4173800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
35	chr10:4171200-4172600	Weak transcription	Fetal Lung	lung
36	chr10:4171400-4173200	Enhancers	Right Atrium	heart
37	chr10:4171400-4173800	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
38	chr10:4171400-4174800	Enhancers	Hela-S3	cervix
39	chr10:4171600-4172400	Weak transcription	Gastric	stomach
40	chr10:4171600-4172800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
41	chr10:4171600-4173400	Enhancers	Primary T helper cells fromperipheralblood	blood
42	chr10:4171800-4172800	Enhancers	Dnd41	blood
43	chr10:4171800-4173200	Enhancers	Sigmoid Colon	Sigmoid Colon
44	chr10:4171800-4173200	Enhancers	Skeletal Muscle Female	skeletal muscle
45	chr10:4171800-4173400	Enhancers	Muscle Satellite Cultured Cells	--
46	chr10:4171800-4174800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
47	chr10:4172000-4173600	Enhancers	Stomach Mucosa	stomach
48	chr10:4172000-4173600	Enhancers	NH-A	brain
49	chr10:4172000-4175000	Enhancers	Osteobl	bone
50	chr10:4172200-4172400	Enhancers	Small Intestine	intestine

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