Variant report

Variant	rs9394261
Chromosome Location	chr6:34938291-34938292
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	chr6:34937846..34940693-chr6:34953607..34956913,3	K562	blood:
2	chr6:34857055..34859091-chr6:34938202..34940889,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000064999	Chromatin interaction

Extended variants
information (count: 62 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:55)

rs_ID	r²[population]
rs11970238	0.94[ASN][1000 genomes]
rs12173920	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12175621	0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12176092	0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs16895362	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs16895467	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs16896235	0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2273007	0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3734260	0.96[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs3734263	0.96[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs3756857	0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3756858	0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs3800439	0.85[ASN][1000 genomes]
rs3800442	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3800447	0.85[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs3800449	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs3807051	0.98[ASN][1000 genomes]
rs4646923	0.93[AMR][1000 genomes];0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs57608318	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs58764768	0.89[AMR][1000 genomes];0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs60509690	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs60815469	0.89[AMR][1000 genomes];0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6906552	0.88[ASN][1000 genomes]
rs73403805	0.85[ASN][1000 genomes]
rs73421513	0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73421527	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs73421528	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs73421536	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs73421541	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs847849	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9348952	0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9348954	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9348955	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9348956	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9348957	0.86[ASN][1000 genomes]
rs9357186	0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9357189	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9357191	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9366871	0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9366873	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9368840	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9368842	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9368844	0.84[ASN][1000 genomes]
rs9380471	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9380472	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9380475	0.95[ASN][1000 genomes]
rs9380478	0.85[ASN][1000 genomes]
rs9394253	0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9394257	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9394258	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9394259	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9394262	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9394264	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9394265	0.94[ASN][1000 genomes]
rs9394267	0.85[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1022844	chr6:34317219-35060519	Weak transcription Genic enhancers Enhancers Active TSS Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	67 gene(s)	inside rSNPs	diseases
2	nsv538195	chr6:34317219-35060519	Enhancers Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Weak transcription Genic enhancers Active TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	67 gene(s)	inside rSNPs	diseases
3	nsv1026121	chr6:34786887-34961360	Weak transcription Enhancers Strong transcription Active TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region miRNA target site	19 gene(s)	inside rSNPs	diseases
4	nsv885797	chr6:34791027-34980601	Enhancers Strong transcription Weak transcription Flanking Active TSS Bivalent/Poised TSS Genic enhancers Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region miRNA target site	18 gene(s)	inside rSNPs	diseases
5	nsv1033135	chr6:34802652-34957093	Weak transcription Strong transcription Flanking Active TSS Enhancers Genic enhancers Bivalent Enhancer Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region miRNA target site	18 gene(s)	inside rSNPs	diseases
6	nsv508402	chr6:34840961-34951288	Weak transcription Flanking Active TSS Strong transcription Enhancers Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region miRNA target site	17 gene(s)	inside rSNPs	diseases
7	nsv5257	chr6:34925313-34970101	ZNF genes & repeats Weak transcription Strong transcription Enhancers Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:117 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:34895800-34949200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr6:34918600-34938400	Weak transcription	Thymus	Thymus
3	chr6:34920400-34958600	Weak transcription	Colonic Mucosa	Colon
4	chr6:34921200-34949400	Weak transcription	Esophagus	oesophagus
5	chr6:34921600-34949400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
6	chr6:34921800-34938800	Weak transcription	HMEC	breast
7	chr6:34922000-34953800	Weak transcription	Hela-S3	cervix
8	chr6:34922600-34940200	Weak transcription	A549	lung
9	chr6:34922600-34940800	Weak transcription	Stomach Mucosa	stomach
10	chr6:34922800-34950200	Weak transcription	Brain Germinal Matrix	brain
11	chr6:34925600-34984800	Weak transcription	Pancreatic Islets	Pancreatic Islet
12	chr6:34926800-34992200	Weak transcription	Small Intestine	intestine
13	chr6:34927200-34952200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
14	chr6:34928400-34949400	Weak transcription	Pancreas	Pancrea
15	chr6:34929400-34963400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
16	chr6:34929800-34953800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
17	chr6:34931600-34954800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
18	chr6:34932400-34949200	Weak transcription	Right Atrium	heart
19	chr6:34932400-34981800	Weak transcription	Cortex derived primary cultured neurospheres	brain
20	chr6:34932800-34938600	Weak transcription	Osteobl	bone
21	chr6:34932800-34962400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
22	chr6:34933000-34939800	Weak transcription	HSMMtube	muscle
23	chr6:34933000-34949400	Weak transcription	HSMM	muscle
24	chr6:34933000-34952600	Weak transcription	Rectal Smooth Muscle	rectum
25	chr6:34935000-34939000	Strong transcription	Fetal Intestine Small	intestine
26	chr6:34935200-34947000	Weak transcription	Fetal Heart	heart
27	chr6:34935200-34950400	Weak transcription	Right Ventricle	heart
28	chr6:34935200-34954800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
29	chr6:34935200-34958800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
30	chr6:34937200-34938600	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
31	chr6:34937200-34938600	Enhancers	NHDF-Ad	bronchial
32	chr6:34937200-34940600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
33	chr6:34937200-34941000	Strong transcription	Monocytes-CD14+_RO01746	blood
34	chr6:34937200-34941200	Strong transcription	Primary monocytes fromperipheralblood	blood
35	chr6:34937400-34938400	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
36	chr6:34937400-34938400	Genic enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
37	chr6:34937400-34938600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
38	chr6:34937400-34939000	Strong transcription	H9 Cell Line	embryonic stem cell
39	chr6:34937400-34939000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
40	chr6:34937400-34939000	Strong transcription	Primary T cells fromperipheralblood	blood
41	chr6:34937400-34939400	Strong transcription	HUES6 Cell Line	embryonic stem cell
42	chr6:34937400-34939600	Strong transcription	HepG2	liver
43	chr6:34937400-34940200	Enhancers	NHLF	lung
44	chr6:34937400-34940400	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
45	chr6:34937400-34940600	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
46	chr6:34937400-34940600	Strong transcription	Primary T cells from cord blood	blood
47	chr6:34937400-34941200	Strong transcription	Primary neutrophils fromperipheralblood	blood
48	chr6:34937400-34941200	Strong transcription	Primary B cells from cord blood	blood
49	chr6:34937400-34941200	Strong transcription	Duodenum Mucosa	Duodenum
50	chr6:34937400-34941200	Strong transcription	Sigmoid Colon	Sigmoid Colon

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