Variant report

Variant	rs17268170
Chromosome Location	chr13:95856286-95856287
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs12584917	0.86[JPT][hapmap];0.84[YRI][hapmap]
rs1564351	1.00[CEU][hapmap];0.82[CHB][hapmap];0.92[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.91[TSI][hapmap];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs17189390	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.91[TSI][hapmap];1.00[YRI][hapmap];0.80[AFR][1000 genomes];0.80[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs17189540	0.90[TSI][hapmap]
rs17268129	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.91[TSI][hapmap];0.80[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17268275	0.81[TSI][hapmap]
rs17268282	0.81[TSI][hapmap]
rs1751026	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1751027	0.92[CEU][hapmap];0.88[JPT][hapmap];0.91[TSI][hapmap];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1751028	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2009772	0.82[CHB][hapmap];0.86[JPT][hapmap];0.84[YRI][hapmap]
rs4148456	0.88[JPT][hapmap];1.00[TSI][hapmap]
rs4148466	0.90[ASN][1000 genomes]
rs4148473	0.90[ASN][1000 genomes]
rs4148487	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.91[TSI][hapmap];1.00[YRI][hapmap];0.80[AFR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs56137953	0.80[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs61965912	0.80[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs61965929	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61965939	0.90[ASN][1000 genomes]
rs61965965	0.85[ASN][1000 genomes]
rs74105447	0.85[AFR][1000 genomes]
rs74105455	0.80[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs74105457	0.86[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs873705	0.90[ASN][1000 genomes]
rs9302048	0.90[ASN][1000 genomes]
rs9302049	1.00[JPT][hapmap];1.00[TSI][hapmap];0.86[ASN][1000 genomes]
rs9516540	0.90[ASN][1000 genomes]
rs9590204	0.86[ASN][1000 genomes]
rs9590205	0.86[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv533659	chr13:95757713-96042149	Enhancers Weak transcription ZNF genes & repeats Genic enhancers Strong transcription Active TSS Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	nsv832689	chr13:95759073-95921308	Genic enhancers ZNF genes & repeats Weak transcription Enhancers Strong transcription Flanking Active TSS Bivalent Enhancer Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv562768	chr13:95849817-95858686	Strong transcription Weak transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:84 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:95807000-95857800	Weak transcription	Esophagus	oesophagus
2	chr13:95807200-95865600	Weak transcription	Colonic Mucosa	Colon
3	chr13:95813200-95858000	Weak transcription	Aorta	Aorta
4	chr13:95827400-95872400	Weak transcription	NH-A	brain
5	chr13:95830400-95857800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr13:95830400-95857800	Weak transcription	Duodenum Smooth Muscle	Duodenum
7	chr13:95833600-95856800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
8	chr13:95833800-95856600	Weak transcription	Rectal Mucosa Donor 31	rectum
9	chr13:95833800-95859800	Weak transcription	Colon Smooth Muscle	Colon
10	chr13:95834000-95865400	Weak transcription	Psoas Muscle	Psoas
11	chr13:95838200-95867400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
12	chr13:95839200-95857000	Weak transcription	Primary hematopoietic stem cells	blood
13	chr13:95839400-95857200	Weak transcription	Primary T cells fromperipheralblood	blood
14	chr13:95839400-95857800	Weak transcription	Primary T cells from cord blood	blood
15	chr13:95839400-95863800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
16	chr13:95839600-95856800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
17	chr13:95839600-95857800	Weak transcription	Primary T helper cells PMA-I stimulated	--
18	chr13:95840400-95874400	Weak transcription	Pancreas	Pancrea
19	chr13:95842000-95857800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
20	chr13:95842000-95864800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
21	chr13:95842000-95869000	Weak transcription	Fetal Kidney	kidney
22	chr13:95842200-95898200	Weak transcription	NHDF-Ad	bronchial
23	chr13:95844400-95864400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
24	chr13:95844400-95865600	Weak transcription	Spleen	Spleen
25	chr13:95844400-95867600	Weak transcription	Rectal Smooth Muscle	rectum
26	chr13:95844600-95858400	Weak transcription	HSMM	muscle
27	chr13:95844600-95863600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
28	chr13:95845000-95857000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
29	chr13:95846000-95871400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
30	chr13:95846200-95858400	Weak transcription	HepG2	liver
31	chr13:95846200-95859400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
32	chr13:95846200-95872400	Weak transcription	Brain Anterior Caudate	brain
33	chr13:95846600-95857600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
34	chr13:95846600-95857600	Weak transcription	Fetal Intestine Large	intestine
35	chr13:95847800-95856400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
36	chr13:95847800-95860200	Weak transcription	Primary B cells from peripheral blood	blood
37	chr13:95847800-95868200	Weak transcription	Fetal Lung	lung
38	chr13:95847800-95880400	Weak transcription	Ovary	ovary
39	chr13:95848000-95856800	Weak transcription	Cortex derived primary cultured neurospheres	brain
40	chr13:95848200-95858000	Weak transcription	Skeletal Muscle Female	skeletal muscle
41	chr13:95848400-95861600	Weak transcription	HSMMtube	muscle
42	chr13:95849800-95856600	Weak transcription	Rectal Mucosa Donor 29	rectum
43	chr13:95850800-95867600	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
44	chr13:95851600-95856400	Strong transcription	Primary hematopoietic stem cells short term culture	blood
45	chr13:95851800-95856600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
46	chr13:95852200-95856600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
47	chr13:95852800-95862200	Weak transcription	Right Ventricle	heart
48	chr13:95853800-95859800	Strong transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
49	chr13:95853800-95863400	Weak transcription	Adipose Nuclei	Adipose
50	chr13:95854000-95857000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

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