Variant report

Variant	rs4253160
Chromosome Location	chr10:50693966-50693967
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 25 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs10776575	0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10857497	0.86[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10857504	0.88[CHB][hapmap];0.89[JPT][hapmap];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10857506	0.81[AMR][1000 genomes]
rs11101144	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11101155	0.81[AMR][1000 genomes]
rs2177819	0.90[CHB][hapmap];0.90[JPT][hapmap];0.81[ASN][1000 genomes]
rs2229760	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2281792	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2281793	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2377900	0.81[AMR][1000 genomes]
rs3750747	0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3793784	0.95[CHB][hapmap];0.90[JPT][hapmap];1.00[YRI][hapmap];0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4253038	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4253190	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4253234	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7895633	0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9971208	0.84[ASN][1000 genomes]
rs9988727	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv895375	chr10:50306386-51028871	Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	33 gene(s)	inside rSNPs	diseases
2	nsv534410	chr10:50317458-50826916	Weak transcription Bivalent Enhancer Enhancers Active TSS Strong transcription Flanking Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	diseases
3	nsv831867	chr10:50607857-50788751	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
4	esv3346476	chr10:50610853-50987802	Bivalent/Poised TSS Bivalent Enhancer Active TSS Strong transcription Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases
5	esv3385048	chr10:50610942-50988537	Flanking Bivalent TSS/Enh Genic enhancers Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases
6	nsv1051636	chr10:50675292-50732280	Strong transcription ZNF genes & repeats Enhancers Weak transcription Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:102 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:50667800-50707400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
2	chr10:50668000-50713400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
3	chr10:50684200-50695400	Weak transcription	Fetal Thymus	thymus
4	chr10:50685000-50723400	Weak transcription	NHLF	lung
5	chr10:50685800-50694600	Weak transcription	Pancreatic Islets	Pancreatic Islet
6	chr10:50686200-50705400	Weak transcription	Brain Germinal Matrix	brain
7	chr10:50686400-50707200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
8	chr10:50686400-50710600	Weak transcription	Psoas Muscle	Psoas
9	chr10:50686400-50716400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
10	chr10:50686400-50716600	Weak transcription	Rectal Smooth Muscle	rectum
11	chr10:50686600-50695600	Weak transcription	Small Intestine	intestine
12	chr10:50686600-50707400	Weak transcription	K562	blood
13	chr10:50686600-50715600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
14	chr10:50686600-50716000	Weak transcription	Cortex derived primary cultured neurospheres	brain
15	chr10:50686600-50716200	Weak transcription	GM12878-XiMat	blood
16	chr10:50686600-50716800	Weak transcription	Brain Anterior Caudate	brain
17	chr10:50686600-50723200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr10:50686600-50727600	Weak transcription	Fetal Brain Male	brain
19	chr10:50686600-50731000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
20	chr10:50686800-50707400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
21	chr10:50688200-50717000	Weak transcription	Brain Inferior Temporal Lobe	brain
22	chr10:50689200-50716200	Weak transcription	Brain Substantia Nigra	brain
23	chr10:50690200-50694600	Weak transcription	Skeletal Muscle Male	skeletal muscle
24	chr10:50690200-50703000	Weak transcription	Thymus	Thymus
25	chr10:50690200-50703600	Weak transcription	Pancreas	Pancrea
26	chr10:50690200-50718000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
27	chr10:50690200-50724000	Weak transcription	Fetal Muscle Trunk	muscle
28	chr10:50690200-50728200	Weak transcription	Colonic Mucosa	Colon
29	chr10:50690400-50696000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
30	chr10:50690400-50700200	Weak transcription	Spleen	Spleen
31	chr10:50690400-50710400	Weak transcription	Fetal Muscle Leg	muscle
32	chr10:50690400-50715800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
33	chr10:50690400-50716400	Weak transcription	Stomach Smooth Muscle	stomach
34	chr10:50690400-50723400	Weak transcription	Right Ventricle	heart
35	chr10:50690600-50695400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
36	chr10:50690600-50715800	Weak transcription	Brain Cingulate Gyrus	brain
37	chr10:50690600-50716000	Weak transcription	Colon Smooth Muscle	Colon
38	chr10:50690600-50723800	Weak transcription	Fetal Lung	lung
39	chr10:50690800-50723600	Weak transcription	Fetal Brain Female	brain
40	chr10:50690800-50726200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
41	chr10:50691000-50694200	Weak transcription	Brain Angular Gyrus	brain
42	chr10:50691000-50699400	Weak transcription	Sigmoid Colon	Sigmoid Colon
43	chr10:50691000-50699800	Weak transcription	Hela-S3	cervix
44	chr10:50691000-50700800	Weak transcription	Esophagus	oesophagus
45	chr10:50691000-50724400	Weak transcription	Lung	lung
46	chr10:50691000-50728200	Weak transcription	Gastric	stomach
47	chr10:50691200-50713000	Weak transcription	Primary monocytes fromperipheralblood	blood
48	chr10:50691400-50706200	Weak transcription	Duodenum Smooth Muscle	Duodenum
49	chr10:50691400-50706600	Weak transcription	Monocytes-CD14+_RO01746	blood
50	chr10:50691600-50694000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived

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