Variant report

Variant	rs9882945
Chromosome Location	chr3:110839660-110839661
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 50 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs11929280	1.00[CEU][hapmap];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1351049	1.00[ASN][1000 genomes]
rs1382077	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1477843	0.85[CEU][hapmap]
rs1477846	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs1477848	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs1477850	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16857689	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2126713	0.85[CEU][hapmap]
rs2126714	0.88[ASN][1000 genomes]
rs2169643	1.00[CEU][hapmap]
rs2399373	0.85[CEU][hapmap]
rs2399376	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35441599	0.92[EUR][1000 genomes]
rs4682229	0.85[CEU][hapmap]
rs4682230	0.85[CEU][hapmap]
rs4682234	0.85[CEU][hapmap]
rs57043424	0.81[AFR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs58184851	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60585479	0.96[ASN][1000 genomes]
rs6437948	0.85[CEU][hapmap]
rs6437953	0.85[CEU][hapmap]
rs72935989	0.86[ASN][1000 genomes]
rs72935999	0.88[ASN][1000 genomes]
rs72937905	0.88[ASN][1000 genomes]
rs72937910	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72937915	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72937922	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72937952	0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs72937960	0.83[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs72937968	0.96[ASN][1000 genomes]
rs72937972	0.96[ASN][1000 genomes]
rs7433877	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs7612667	0.85[CEU][hapmap]
rs7620372	0.82[CEU][hapmap]
rs7648752	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs873132	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs9288918	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs9288919	0.80[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs9821335	0.85[CEU][hapmap]
rs9828899	0.85[CEU][hapmap]
rs9853370	0.80[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs9866028	0.85[CEU][hapmap]

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	nsv1003106	chr3:110264476-111105943	Weak transcription Enhancers Strong transcription Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	nsv460821	chr3:110637471-111501097	Enhancers Active TSS Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Weak transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
3	nsv591275	chr3:110637471-111501097	Strong transcription Enhancers Weak transcription ZNF genes & repeats Active TSS Bivalent/Poised TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
4	esv1850918	chr3:110685181-110889974	Bivalent Enhancer Weak transcription Enhancers Flanking Bivalent TSS/Enh Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	nsv591276	chr3:110822496-110854196	Enhancers Weak transcription Strong transcription Genic enhancers ZNF genes & repeats	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	n/a
6	nsv877338	chr3:110824425-110860188	Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	n/a
7	nsv1008308	chr3:110836281-110885834	Enhancers Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS	Chromatin interactive region	2 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:63 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:110816000-110873800	Weak transcription	Left Ventricle	heart
2	chr3:110816000-110893400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr3:110817400-110855200	Weak transcription	Pancreas	Pancrea
4	chr3:110819200-110857200	Weak transcription	NHLF	lung
5	chr3:110826600-110845000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
6	chr3:110826800-110847600	Weak transcription	A549	lung
7	chr3:110826800-110884200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
8	chr3:110827000-110847400	Weak transcription	Duodenum Smooth Muscle	Duodenum
9	chr3:110827600-110842200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
10	chr3:110827800-110849200	Weak transcription	Sigmoid Colon	Sigmoid Colon
11	chr3:110828000-110851400	Weak transcription	Aorta	Aorta
12	chr3:110829400-110893400	Weak transcription	HUVEC	blood vessel
13	chr3:110830400-110852800	Weak transcription	NH-A	brain
14	chr3:110830600-110854200	Weak transcription	Right Ventricle	heart
15	chr3:110830800-110852400	Weak transcription	Fetal Brain Male	brain
16	chr3:110830800-110853800	Weak transcription	Brain Inferior Temporal Lobe	brain
17	chr3:110831600-110844000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
18	chr3:110831800-110842200	Weak transcription	Muscle Satellite Cultured Cells	--
19	chr3:110832000-110840400	Weak transcription	HSMM	muscle
20	chr3:110832000-110840800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
21	chr3:110832000-110854600	Weak transcription	Fetal Muscle Trunk	muscle
22	chr3:110832000-110854600	Weak transcription	Skeletal Muscle Female	skeletal muscle
23	chr3:110832000-110856600	Weak transcription	Stomach Smooth Muscle	stomach
24	chr3:110832200-110840800	Weak transcription	HUES48 Cell Line	embryonic stem cell
25	chr3:110832200-110842400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
26	chr3:110832200-110847200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
27	chr3:110832200-110852400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
28	chr3:110832200-110853600	Weak transcription	HSMMtube	muscle
29	chr3:110832200-110881800	Weak transcription	Small Intestine	intestine
30	chr3:110832200-110892400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
31	chr3:110832400-110841800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
32	chr3:110832400-110911200	Weak transcription	Rectal Mucosa Donor 31	rectum
33	chr3:110832600-110840800	Weak transcription	Placenta	Placenta
34	chr3:110832800-110852400	Weak transcription	Cortex derived primary cultured neurospheres	brain
35	chr3:110833000-110845000	Weak transcription	Fetal Kidney	kidney
36	chr3:110833600-110855400	Weak transcription	Colon Smooth Muscle	Colon
37	chr3:110834000-110891800	Weak transcription	Rectal Smooth Muscle	rectum
38	chr3:110834400-110842400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
39	chr3:110834400-110852400	Weak transcription	Ovary	ovary
40	chr3:110835600-110929600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
41	chr3:110836200-110846200	Weak transcription	Osteobl	bone
42	chr3:110836200-110848400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
43	chr3:110836200-110872800	Weak transcription	Rectal Mucosa Donor 29	rectum
44	chr3:110836800-110845000	Weak transcription	Liver	Liver
45	chr3:110837200-110854400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
46	chr3:110837400-110846400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
47	chr3:110838000-110840600	Weak transcription	NHDF-Ad	bronchial
48	chr3:110838200-110840200	Weak transcription	Dnd41	blood
49	chr3:110838200-110840800	Weak transcription	HUES64 Cell Line	embryonic stem cell
50	chr3:110838200-110841000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived

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