Variant report

Variant	rs11792747
Chromosome Location	chr9:103234432-103234433
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:103187999..103190908-chr9:103233595..103236918,6	MCF-7	breast:
2	chr9:103188255..103190992-chr9:103234182..103236159,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000066697	Chromatin interaction

Extended variants
information (count: 52 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:48)

rs_ID	r²[population]
rs11788011	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs11788350	1.00[CEU][hapmap]
rs11788918	1.00[CEU][hapmap];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs11789665	1.00[CEU][hapmap];0.80[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11790432	0.87[CEU][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11791916	1.00[CEU][hapmap]
rs11792489	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11792926	1.00[CEU][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11793144	1.00[CEU][hapmap]
rs11793359	1.00[CEU][hapmap];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11793457	1.00[CEU][hapmap];0.80[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11794817	1.00[CEU][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs13283467	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs13284662	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs13286180	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs13289939	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs13292364	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs13294866	1.00[CEU][hapmap]
rs13301847	1.00[CEU][hapmap]
rs13302460	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs28759503	0.80[AMR][1000 genomes]
rs34138998	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs34169031	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34234519	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34390257	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34555593	1.00[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs34759817	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34779059	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34798346	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs34999135	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs35039632	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs35255178	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35315430	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35388593	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs35394420	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs35495064	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35656901	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs36011161	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs36055955	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs36105493	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs55693063	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7019804	1.00[CEU][hapmap];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs71507684	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs71507685	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs71507686	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs71507687	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7869547	1.00[CEU][hapmap];0.80[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9696536	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][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	nsv893623	chr9:102648036-103405197	Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	51 gene(s)	inside rSNPs	diseases
2	nsv825012	chr9:103152205-103256281	Flanking Active TSS Active TSS Weak transcription Strong transcription Enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
3	nsv614955	chr9:103181596-103261227	ZNF genes & repeats Enhancers Bivalent/Poised TSS Weak transcription Flanking Active TSS Strong transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
4	esv3348068	chr9:103234431-103236904	Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Weak transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:35 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:103216600-103235000	Weak transcription	Aorta	Aorta
2	chr9:103216800-103235000	Weak transcription	Fetal Muscle Leg	muscle
3	chr9:103217000-103234800	Weak transcription	Fetal Brain Female	brain
4	chr9:103217200-103234800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr9:103218200-103235000	Weak transcription	NHLF	lung
6	chr9:103218400-103235000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
7	chr9:103220200-103234800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
8	chr9:103228800-103234600	Weak transcription	Colon Smooth Muscle	Colon
9	chr9:103228800-103235000	Weak transcription	Adipose Nuclei	Adipose
10	chr9:103229000-103235000	Weak transcription	Pancreas	Pancrea
11	chr9:103229400-103235000	Weak transcription	Skeletal Muscle Male	skeletal muscle
12	chr9:103229600-103234600	Weak transcription	Brain Substantia Nigra	brain
13	chr9:103230000-103234800	Weak transcription	Brain Cingulate Gyrus	brain
14	chr9:103230200-103234800	Weak transcription	Brain Anterior Caudate	brain
15	chr9:103230200-103235000	Weak transcription	Brain Inferior Temporal Lobe	brain
16	chr9:103230400-103234800	Weak transcription	Brain Angular Gyrus	brain
17	chr9:103230600-103234600	Weak transcription	HepG2	liver
18	chr9:103231600-103234600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr9:103231600-103234800	Weak transcription	Cortex derived primary cultured neurospheres	brain
20	chr9:103231800-103234600	Weak transcription	H9 Cell Line	embryonic stem cell
21	chr9:103231800-103234800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
22	chr9:103232200-103235000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
23	chr9:103232200-103235000	Weak transcription	Psoas Muscle	Psoas
24	chr9:103232200-103235400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
25	chr9:103232400-103234800	Weak transcription	Brain Hippocampus Middle	brain
26	chr9:103232800-103235000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
27	chr9:103233000-103234800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
28	chr9:103233400-103234600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
29	chr9:103234400-103234600	Enhancers	HUES6 Cell Line	embryonic stem cell
30	chr9:103234400-103234600	Enhancers	iPS-18 Cell Line	embryonic stem cell
31	chr9:103234400-103234600	Enhancers	iPS-20b Cell Line	embryonic stem cell
32	chr9:103234400-103234600	Enhancers	K562	blood
33	chr9:103234400-103234800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
34	chr9:103234400-103234800	Enhancers	HUES64 Cell Line	embryonic stem cell
35	chr9:103234400-103234800	Bivalent Enhancer	Primary B cells from cord blood	blood

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