Variant report

Variant	rs10516410
Chromosome Location	chr4:22508257-22508258
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr4:22507819..22511270-chr4:22511320..22514443,4	MCF-7	breast:
2	chr4:22508191..22514199-chr4:22515176..22519559,12	MCF-7	breast:
3	chr4:22505951..22512123-chr4:22514706..22518696,9	MCF-7	breast:

Variant related genes	Relation type
ENSG00000152990	Chromatin interaction

Extended variants
information (count: 22 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs10016470	0.84[AMR][1000 genomes]
rs10938904	0.87[AFR][1000 genomes];0.84[AMR][1000 genomes]
rs1564133	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs16872695	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs16872700	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs16872711	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs16872734	1.00[CHB][hapmap]
rs16872745	1.00[CHB][hapmap];0.83[CHD][hapmap];1.00[JPT][hapmap]
rs28413601	0.95[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs58471362	0.89[ASN][1000 genomes]
rs61793414	0.89[ASN][1000 genomes]
rs61793415	0.89[ASN][1000 genomes]
rs61793416	0.89[ASN][1000 genomes]
rs61793417	0.89[ASN][1000 genomes]
rs6448161	1.00[ASW][hapmap];0.94[GIH][hapmap];0.87[LWK][hapmap];0.92[MEX][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.84[AMR][1000 genomes]
rs6830414	0.85[YRI][hapmap];0.84[AMR][1000 genomes]
rs717674	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7664692	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs7679108	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs7691588	0.89[ASN][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	esv3349061	chr4:22379581-22887563	Enhancers Weak transcription Strong transcription Active TSS Genic enhancers Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	nsv821634	chr4:22427074-22865948	Enhancers Weak transcription Active TSS Strong transcription Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:82 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:22488600-22516000	Weak transcription	Primary hematopoietic stem cells	blood
2	chr4:22490200-22508600	Weak transcription	Right Atrium	heart
3	chr4:22497000-22515600	Weak transcription	Fetal Stomach	stomach
4	chr4:22500400-22510600	Enhancers	HUES48 Cell Line	embryonic stem cell
5	chr4:22500400-22510600	Enhancers	HMEC	breast
6	chr4:22500600-22510800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
7	chr4:22502200-22515600	Weak transcription	Primary T cells from cord blood	blood
8	chr4:22502800-22509800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
9	chr4:22502800-22515600	Weak transcription	Fetal Kidney	kidney
10	chr4:22503200-22508400	Weak transcription	Rectal Smooth Muscle	rectum
11	chr4:22503200-22515600	Weak transcription	NHDF-Ad	bronchial
12	chr4:22504000-22508600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
13	chr4:22504000-22514200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
14	chr4:22504800-22509200	Weak transcription	Placenta	Placenta
15	chr4:22504800-22509400	Weak transcription	Duodenum Smooth Muscle	Duodenum
16	chr4:22504800-22510800	Enhancers	HUES64 Cell Line	embryonic stem cell
17	chr4:22504800-22512200	Weak transcription	Duodenum Mucosa	Duodenum
18	chr4:22504800-22513400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
19	chr4:22504800-22514200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
20	chr4:22505000-22509200	Weak transcription	NH-A	brain
21	chr4:22505000-22515200	Weak transcription	Muscle Satellite Cultured Cells	--
22	chr4:22505200-22509000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
23	chr4:22505200-22512200	Weak transcription	Fetal Intestine Large	intestine
24	chr4:22505400-22509000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
25	chr4:22505400-22509000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
26	chr4:22505400-22509000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
27	chr4:22505400-22509400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
28	chr4:22505400-22509800	Weak transcription	Hela-S3	cervix
29	chr4:22505400-22511800	Weak transcription	Fetal Intestine Small	intestine
30	chr4:22505400-22515400	Weak transcription	A549	lung
31	chr4:22505600-22509200	Weak transcription	Brain Anterior Caudate	brain
32	chr4:22505600-22510400	Enhancers	Liver	Liver
33	chr4:22505600-22513200	Weak transcription	Fetal Muscle Trunk	muscle
34	chr4:22505600-22515600	Weak transcription	Rectal Mucosa Donor 29	rectum
35	chr4:22505800-22509000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
36	chr4:22506000-22508400	Enhancers	H1 Cell Line	embryonic stem cell
37	chr4:22506000-22508400	Enhancers	HUES6 Cell Line	embryonic stem cell
38	chr4:22506000-22508600	Enhancers	ES-I3 Cell Line	embryonic stem cell
39	chr4:22506000-22508600	Enhancers	iPS-20b Cell Line	embryonic stem cell
40	chr4:22506000-22510800	Enhancers	H9 Cell Line	embryonic stem cell
41	chr4:22506200-22510800	Enhancers	iPS-18 Cell Line	embryonic stem cell
42	chr4:22506400-22508400	Enhancers	Psoas Muscle	Psoas
43	chr4:22506400-22509200	Weak transcription	Fetal Lung	lung
44	chr4:22506400-22511800	Weak transcription	Left Ventricle	heart
45	chr4:22506400-22513800	Weak transcription	Brain Germinal Matrix	brain
46	chr4:22506600-22509200	Weak transcription	Fetal Muscle Leg	muscle
47	chr4:22506600-22511800	Weak transcription	Esophagus	oesophagus
48	chr4:22506600-22515800	Weak transcription	Aorta	Aorta
49	chr4:22506800-22509400	Weak transcription	Skeletal Muscle Male	skeletal muscle
50	chr4:22506800-22510200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain

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