Variant report

Variant	rs13177573
Chromosome Location	chr5:37233437-37233438
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 82 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:59)

rs_ID	r²[population]
rs10042473	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10061157	0.94[JPT][hapmap]
rs10073054	0.88[JPT][hapmap]
rs10073063	0.90[ASN][1000 genomes]
rs10461978	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10512664	1.00[ASW][hapmap];1.00[CEU][hapmap];0.86[CHB][hapmap];0.86[CHD][hapmap];0.97[GIH][hapmap];0.94[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs11954689	0.90[ASN][1000 genomes]
rs12055164	0.92[MEX][hapmap];0.85[TSI][hapmap]
rs125682	0.82[JPT][hapmap]
rs12652735	0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12652882	0.93[AFR][1000 genomes];0.85[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs12658479	1.00[ASW][hapmap];1.00[CEU][hapmap];0.82[CHB][hapmap];0.84[CHD][hapmap];0.97[GIH][hapmap];0.94[JPT][hapmap];1.00[LWK][hapmap];0.93[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.93[AFR][1000 genomes];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs13153873	0.84[AMR][1000 genomes]
rs13154730	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs13160521	0.92[MEX][hapmap];0.81[AMR][1000 genomes]
rs13163757	0.81[AMR][1000 genomes]
rs13163937	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs13165088	0.92[MEX][hapmap];0.85[TSI][hapmap]
rs13166067	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs13166829	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs13166974	0.93[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs13169211	0.93[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs13171061	1.00[AFR][1000 genomes];0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs13171414	0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13176996	0.93[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs13177875	0.93[AFR][1000 genomes]
rs13179402	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs13181187	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13183090	0.86[AFR][1000 genomes]
rs13184464	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs13188136	1.00[AFR][1000 genomes]
rs13189308	0.87[AFR][1000 genomes];0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs16903459	0.86[AFR][1000 genomes]
rs16903490	0.82[AFR][1000 genomes]
rs16903531	1.00[ASW][hapmap];1.00[CEU][hapmap];0.82[CHB][hapmap];0.84[CHD][hapmap];0.95[GIH][hapmap];0.94[JPT][hapmap];1.00[LWK][hapmap];0.93[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.82[YRI][hapmap];0.93[AFR][1000 genomes];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2098713	0.94[JPT][hapmap]
rs217838	0.82[JPT][hapmap]
rs217840	0.83[JPT][hapmap]
rs2366273	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs301863	0.94[JPT][hapmap]
rs301867	0.94[JPT][hapmap]
rs301869	0.94[JPT][hapmap]
rs34066351	0.82[AFR][1000 genomes]
rs34525350	1.00[AFR][1000 genomes]
rs34564408	0.84[AMR][1000 genomes]
rs35151340	0.87[AFR][1000 genomes];0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs59398009	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs61602398	0.85[AFR][1000 genomes]
rs61748200	1.00[AFR][1000 genomes]
rs6860727	0.94[JPT][hapmap]
rs6879284	0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6887958	0.94[JPT][hapmap]
rs7700869	0.84[ASN][1000 genomes]
rs7711452	0.94[JPT][hapmap]
rs7715883	0.81[ASN][1000 genomes]
rs7729404	0.81[ASN][1000 genomes]
rs7735138	0.81[ASN][1000 genomes]
rs9632396	1.00[CEU][hapmap];0.86[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs9637791	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.80[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:23 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv525478	chr5:36804225-37349895	Strong transcription Transcr. at gene 5' and 3' Active TSS Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	66 gene(s)	inside rSNPs	diseases
2	esv1793961	chr5:36866835-37361728	Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	65 gene(s)	inside rSNPs	diseases
3	nsv530225	chr5:36886635-37331912	Weak transcription Strong transcription ZNF genes & repeats Enhancers Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
4	nsv1024051	chr5:36899712-37303001	Weak transcription Enhancers Strong transcription ZNF genes & repeats Active TSS Genic enhancers Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
5	nsv537725	chr5:36899712-37303001	Strong transcription Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
6	nsv530226	chr5:36906377-37606367	Weak transcription Enhancers Strong transcription ZNF genes & repeats Active TSS Bivalent/Poised TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	45 gene(s)	inside rSNPs	diseases
7	esv1802391	chr5:36958598-37242600	Strong transcription Weak transcription Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
8	nsv534064	chr5:37054962-37586210	Active TSS Strong transcription Flanking Active TSS Weak transcription Enhancers ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
9	nsv881511	chr5:37088627-37552852	Strong transcription Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	43 gene(s)	inside rSNPs	diseases
10	nsv597823	chr5:37111565-37430365	Strong transcription Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Enhancers Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	42 gene(s)	inside rSNPs	diseases
11	nsv1026554	chr5:37112133-37734859	Strong transcription Weak transcription Active TSS Flanking Active TSS Enhancers Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	45 gene(s)	inside rSNPs	diseases
12	nsv537726	chr5:37112133-37734859	Weak transcription Strong transcription Enhancers Active TSS Genic enhancers Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	45 gene(s)	inside rSNPs	diseases
13	nsv1025988	chr5:37115142-37586211	Strong transcription Weak transcription ZNF genes & repeats Genic enhancers Enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	43 gene(s)	inside rSNPs	diseases
14	nsv537727	chr5:37115142-37586211	Strong transcription Active TSS Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	43 gene(s)	inside rSNPs	diseases
15	nsv830265	chr5:37152221-37312233	Strong transcription Active TSS Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
16	nsv530227	chr5:37157106-37571999	Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Enhancers Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	42 gene(s)	inside rSNPs	diseases
17	nsv880406	chr5:37173930-37345270	Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
18	nsv880839	chr5:37173930-37465126	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	41 gene(s)	inside rSNPs	diseases
19	nsv948741	chr5:37179341-37582164	Weak transcription Strong transcription Active TSS ZNF genes & repeats Flanking Active TSS Enhancers Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	42 gene(s)	inside rSNPs	diseases
20	nsv949716	chr5:37179341-37967352	Weak transcription Strong transcription Flanking Active TSS Enhancers Bivalent Enhancer Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	58 gene(s)	inside rSNPs	diseases
21	nsv597824	chr5:37206621-37409579	Weak transcription Strong transcription Active TSS Enhancers Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	40 gene(s)	inside rSNPs	diseases
22	nsv597825	chr5:37206621-37430365	Weak transcription Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Enhancers Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	41 gene(s)	inside rSNPs	diseases
23	esv3358042	chr5:37232244-37251247	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs13177573	WDR70	cis	cerebellum	SCAN
rs13177573	UGT3A2	cis	cerebellum	SCAN

Chromatin state (count:109 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:37170400-37235600	Weak transcription	Pancreatic Islets	Pancreatic Islet
2	chr5:37171600-37249000	Weak transcription	Spleen	Spleen
3	chr5:37198400-37236200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
4	chr5:37209400-37234800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
5	chr5:37209600-37239800	Weak transcription	Small Intestine	intestine
6	chr5:37209600-37240200	Weak transcription	Colonic Mucosa	Colon
7	chr5:37209600-37248000	Weak transcription	Gastric	stomach
8	chr5:37209600-37248400	Weak transcription	NHEK	skin
9	chr5:37211200-37237400	Weak transcription	Rectal Smooth Muscle	rectum
10	chr5:37211800-37234400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr5:37213400-37236200	Weak transcription	Right Ventricle	heart
12	chr5:37214000-37233600	Weak transcription	Fetal Brain Male	brain
13	chr5:37215000-37237000	Weak transcription	Fetal Heart	heart
14	chr5:37215000-37248400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
15	chr5:37215200-37233800	Weak transcription	Primary T helper cells PMA-I stimulated	--
16	chr5:37215200-37234000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
17	chr5:37215200-37248200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
18	chr5:37216600-37237000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
19	chr5:37216600-37248000	Weak transcription	Pancreas	Pancrea
20	chr5:37221200-37236400	Weak transcription	Placenta Amnion	Placenta Amnion
21	chr5:37221800-37235800	Weak transcription	Left Ventricle	heart
22	chr5:37223400-37236800	Weak transcription	Brain Angular Gyrus	brain
23	chr5:37223600-37237600	Weak transcription	Psoas Muscle	Psoas
24	chr5:37223800-37233600	Weak transcription	Fetal Brain Female	brain
25	chr5:37224200-37247200	Weak transcription	HUVEC	blood vessel
26	chr5:37224800-37236200	Weak transcription	A549	lung
27	chr5:37225600-37233800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
28	chr5:37225600-37237600	Weak transcription	Lung	lung
29	chr5:37225600-37238000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
30	chr5:37225600-37248600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
31	chr5:37226000-37237600	Weak transcription	Aorta	Aorta
32	chr5:37226800-37248000	Weak transcription	HepG2	liver
33	chr5:37227200-37248400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
34	chr5:37227400-37236200	Weak transcription	Brain Inferior Temporal Lobe	brain
35	chr5:37227400-37236800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
36	chr5:37227400-37237200	Weak transcription	Brain Substantia Nigra	brain
37	chr5:37227400-37239800	Weak transcription	HUES48 Cell Line	embryonic stem cell
38	chr5:37227400-37248400	Weak transcription	HMEC	breast
39	chr5:37227400-37248400	Weak transcription	NHLF	lung
40	chr5:37227400-37248600	Weak transcription	HUES6 Cell Line	embryonic stem cell
41	chr5:37227600-37237200	Weak transcription	Duodenum Mucosa	Duodenum
42	chr5:37227800-37233600	Weak transcription	Primary T helper cells fromperipheralblood	blood
43	chr5:37227800-37234000	Weak transcription	Primary T cells fromperipheralblood	blood
44	chr5:37227800-37234000	Weak transcription	Duodenum Smooth Muscle	Duodenum
45	chr5:37227800-37234800	Weak transcription	Colon Smooth Muscle	Colon
46	chr5:37227800-37237400	Weak transcription	Rectal Mucosa Donor 29	rectum
47	chr5:37227800-37246200	Weak transcription	NH-A	brain
48	chr5:37227800-37248600	Weak transcription	Rectal Mucosa Donor 31	rectum
49	chr5:37228000-37233600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
50	chr5:37228000-37236200	Weak transcription	Fetal Kidney	kidney

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