Variant report

Variant	rs17074224
Chromosome Location	chr6:145123326-145123327
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 39 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs10499237	1.00[CEU][hapmap];0.93[CHB][hapmap];0.94[JPT][hapmap];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11546879	1.00[YRI][hapmap]
rs11751954	0.80[CEU][hapmap];0.85[AMR][1000 genomes]
rs11753714	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11754229	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11754249	0.82[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12525007	0.82[ASW][hapmap];0.80[CEU][hapmap];0.94[CHB][hapmap];0.87[CHD][hapmap];0.94[JPT][hapmap];1.00[MEX][hapmap];0.95[TSI][hapmap];0.94[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs1544157	0.82[ASW][hapmap];0.91[MEX][hapmap]
rs17074210	1.00[CEU][hapmap];0.83[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17074221	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];1.00[TSI][hapmap];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4143181	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4266507	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap];1.00[TSI][hapmap];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4419685	0.89[JPT][hapmap];0.84[MEX][hapmap];0.95[TSI][hapmap]
rs4895653	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4895656	0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4895658	0.87[MEX][hapmap]
rs4896739	0.94[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs4896741	0.80[CEU][hapmap];0.88[CHB][hapmap];0.94[JPT][hapmap];0.95[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs4896746	1.00[CEU][hapmap];0.94[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4896748	1.00[CEU][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4896757	0.81[AMR][1000 genomes]
rs62427228	0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs62427231	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs62427233	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62427244	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62427245	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs62427246	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs62427251	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62427253	0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6920589	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6922804	0.80[CEU][hapmap];0.88[CHB][hapmap];0.94[JPT][hapmap];0.86[AMR][1000 genomes];0.80[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7744118	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9497087	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9497090	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9497091	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1016747	chr6:144917411-145599874	Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Weak transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
2	nsv830833	chr6:145001310-145201143	Strong transcription Weak transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
3	nsv886740	chr6:145105354-145199259	Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region miRNA target site	1 gene(s)	inside rSNPs	diseases
4	nsv886741	chr6:145123326-145165362	ZNF genes & repeats Strong transcription Weak transcription Enhancers Genic enhancers	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:97 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:145066200-145126200	Weak transcription	Stomach Mucosa	stomach
2	chr6:145084000-145155800	Weak transcription	Right Ventricle	heart
3	chr6:145085800-145134800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
4	chr6:145089600-145138400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
5	chr6:145090000-145136800	Weak transcription	Fetal Heart	heart
6	chr6:145091000-145145000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
7	chr6:145094400-145136800	Weak transcription	Pancreatic Islets	Pancreatic Islet
8	chr6:145099600-145165800	Weak transcription	Small Intestine	intestine
9	chr6:145100000-145137600	Strong transcription	Primary monocytes fromperipheralblood	blood
10	chr6:145100400-145125600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
11	chr6:145100400-145133200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
12	chr6:145100400-145145000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
13	chr6:145102200-145123600	Strong transcription	Primary T cells fromperipheralblood	blood
14	chr6:145110200-145124200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
15	chr6:145110400-145137000	Strong transcription	Primary B cells from cord blood	blood
16	chr6:145113600-145126400	Weak transcription	Brain Substantia Nigra	brain
17	chr6:145114200-145135600	Strong transcription	Primary B cells from peripheral blood	blood
18	chr6:145115200-145155000	Weak transcription	Esophagus	oesophagus
19	chr6:145115600-145131400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
20	chr6:145115600-145134800	Weak transcription	Lung	lung
21	chr6:145115800-145156600	Weak transcription	HUES6 Cell Line	embryonic stem cell
22	chr6:145116000-145125600	Weak transcription	Fetal Muscle Trunk	muscle
23	chr6:145116000-145142000	Weak transcription	Skeletal Muscle Female	skeletal muscle
24	chr6:145116000-145148600	Weak transcription	Placenta	Placenta
25	chr6:145116000-145154800	Weak transcription	Spleen	Spleen
26	chr6:145116000-145155800	Weak transcription	Skeletal Muscle Male	skeletal muscle
27	chr6:145116200-145125600	Weak transcription	Sigmoid Colon	Sigmoid Colon
28	chr6:145116200-145154400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
29	chr6:145116400-145125800	Weak transcription	Fetal Muscle Leg	muscle
30	chr6:145116400-145126600	Weak transcription	Fetal Intestine Large	intestine
31	chr6:145116400-145155600	Weak transcription	Stomach Smooth Muscle	stomach
32	chr6:145116400-145169000	Weak transcription	Rectal Smooth Muscle	rectum
33	chr6:145117200-145128800	Strong transcription	Primary hematopoietic stem cells	blood
34	chr6:145117200-145137400	Strong transcription	Dnd41	blood
35	chr6:145117400-145175200	Strong transcription	Monocytes-CD14+_RO01746	blood
36	chr6:145117600-145124000	Strong transcription	HepG2	liver
37	chr6:145117600-145148400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
38	chr6:145118200-145137000	Weak transcription	Psoas Muscle	Psoas
39	chr6:145119000-145123800	Strong transcription	Fetal Thymus	thymus
40	chr6:145119200-145134800	Weak transcription	GM12878-XiMat	blood
41	chr6:145119200-145155800	Weak transcription	Pancreas	Pancrea
42	chr6:145119600-145128200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
43	chr6:145119600-145129000	Weak transcription	Colon Smooth Muscle	Colon
44	chr6:145119600-145139600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
45	chr6:145119800-145125600	Weak transcription	HUVEC	blood vessel
46	chr6:145119800-145131200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
47	chr6:145119800-145133000	Weak transcription	HUES64 Cell Line	embryonic stem cell
48	chr6:145120000-145129600	Weak transcription	Osteobl	bone
49	chr6:145120000-145141600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
50	chr6:145120000-145145800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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