Variant report

Variant	rs4330560
Chromosome Location	chr6:118002010-118002011
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:117996369..117998015-chr6:118001228..118003353,2	MCF-7	breast:
2	chr6:117996003..117998019-chr6:118000883..118003084,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000153989	Chromatin interaction

Extended variants
information (count: 12 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs10872155	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11153695	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs2498586	1.00[CEU][hapmap];0.92[EUR][1000 genomes]
rs2498587	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.95[AFR][1000 genomes];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2498588	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2498589	0.93[AFR][1000 genomes];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2501625	0.95[AFR][1000 genomes];0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4406269	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4552764	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6899715	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs72951506	0.93[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv532050	chr6:117528154-118203005	ZNF genes & repeats Enhancers Bivalent Enhancer Active TSS Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:111 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:117997400-118016200	Weak transcription	Aorta	Aorta
2	chr6:117997600-118003000	Enhancers	Primary T helper naive cells from peripheral blood	blood
3	chr6:117997600-118005600	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
4	chr6:117997800-118003800	Enhancers	Primary monocytes fromperipheralblood	blood
5	chr6:117998000-118015200	Weak transcription	Fetal Muscle Trunk	muscle
6	chr6:117998200-118003200	Weak transcription	Lung	lung
7	chr6:117998200-118003400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
8	chr6:117998200-118004600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
9	chr6:117998200-118005600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
10	chr6:117998200-118009600	Enhancers	Primary T helper cells fromperipheralblood	blood
11	chr6:117998200-118016000	Weak transcription	Fetal Stomach	stomach
12	chr6:117998200-118025800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
13	chr6:117998200-118026400	Weak transcription	Esophagus	oesophagus
14	chr6:117998400-118006200	Enhancers	Primary T helper naive cells fromperipheralblood	blood
15	chr6:117998400-118015800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
16	chr6:117998600-118002600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
17	chr6:117998800-118002200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
18	chr6:117998800-118003800	Enhancers	Primary T killer memory cells from peripheral blood	blood
19	chr6:117998800-118004200	Enhancers	Primary T regulatory cells fromperipheralblood	blood
20	chr6:117998800-118015200	Weak transcription	Fetal Thymus	thymus
21	chr6:117998800-118015400	Weak transcription	H1 Cell Line	embryonic stem cell
22	chr6:117998800-118016000	Weak transcription	Fetal Muscle Leg	muscle
23	chr6:117998800-118023000	Weak transcription	HSMMtube	muscle
24	chr6:117999000-118003000	Enhancers	Liver	Liver
25	chr6:117999000-118003000	Weak transcription	Right Atrium	heart
26	chr6:117999000-118015800	Weak transcription	Rectal Smooth Muscle	rectum
27	chr6:117999000-118039800	Weak transcription	Gastric	stomach
28	chr6:117999000-118042000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
29	chr6:117999200-118002200	Weak transcription	Brain Angular Gyrus	brain
30	chr6:117999200-118002800	Genic enhancers	K562	blood
31	chr6:117999200-118010200	Weak transcription	HUES6 Cell Line	embryonic stem cell
32	chr6:117999200-118010200	Weak transcription	Fetal Intestine Large	intestine
33	chr6:117999200-118013400	Weak transcription	HUES48 Cell Line	embryonic stem cell
34	chr6:117999200-118014000	Weak transcription	HUES64 Cell Line	embryonic stem cell
35	chr6:117999200-118014000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
36	chr6:117999200-118014600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
37	chr6:117999200-118014800	Weak transcription	NH-A	brain
38	chr6:117999200-118015400	Weak transcription	NHDF-Ad	bronchial
39	chr6:117999200-118015800	Weak transcription	Brain Germinal Matrix	brain
40	chr6:117999200-118016000	Weak transcription	Fetal Intestine Small	intestine
41	chr6:117999200-118016400	Weak transcription	Brain Hippocampus Middle	brain
42	chr6:117999200-118016400	Weak transcription	Brain Substantia Nigra	brain
43	chr6:117999200-118028200	Weak transcription	Hela-S3	cervix
44	chr6:117999200-118029600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
45	chr6:117999400-118003800	Genic enhancers	HepG2	liver
46	chr6:117999400-118004600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
47	chr6:117999400-118014400	Weak transcription	Rectal Mucosa Donor 29	rectum
48	chr6:117999400-118014600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
49	chr6:117999400-118015200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
50	chr6:117999400-118015800	Weak transcription	Cortex derived primary cultured neurospheres	brain

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