Variant report

Variant	rs7332791
Chromosome Location	chr13:40291145-40291146
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 69 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:63)

rs_ID	r²[population]
rs3812882	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3812883	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3812884	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3812885	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3812886	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3812887	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3812888	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4142370	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap]
rs4245396	0.80[ASN][1000 genomes]
rs4278626	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4312180	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4384490	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4408422	0.83[ASN][1000 genomes]
rs4415900	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4941936	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4941937	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4941938	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4941939	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4941941	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4943686	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4943687	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4943691	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4943694	0.80[ASN][1000 genomes]
rs6563732	0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs67976778	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7325068	0.85[JPT][hapmap];0.83[ASN][1000 genomes]
rs7325655	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap]
rs7327779	0.95[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7334651	0.85[JPT][hapmap]
rs7335799	0.97[AFR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7984113	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap]
rs7984958	0.90[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.89[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9315720	1.00[CHB][hapmap];0.95[JPT][hapmap]
rs9315725	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9532408	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap]
rs9532410	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9532411	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9532412	1.00[CHB][hapmap];0.95[JPT][hapmap];0.92[ASN][1000 genomes]
rs9532413	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9532414	1.00[CEU][hapmap];0.80[YRI][hapmap];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9532420	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9548857	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap]
rs9548859	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap]
rs9548862	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap]
rs9548863	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap]
rs9548865	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9548866	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9548867	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9548868	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9548869	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9548870	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9548875	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9548880	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9548893	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9548894	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9548896	0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9548901	0.81[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs9566471	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9566472	0.99[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9576874	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9576875	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9576881	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9576882	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.88[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	nsv1054600	chr13:39801283-40545027	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	16 gene(s)	inside rSNPs	diseases
2	nsv1054797	chr13:40198744-40618428	Enhancers Weak transcription Strong transcription ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	10 gene(s)	inside rSNPs	diseases
3	nsv541755	chr13:40198744-40618428	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer 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 miRNA	10 gene(s)	inside rSNPs	diseases
4	nsv832586	chr13:40222880-40379063	Enhancers Strong transcription Weak transcription Active TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA	6 gene(s)	inside rSNPs	diseases
5	nsv1040458	chr13:40249387-40638129	Weak transcription Enhancers Strong transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
6	nsv471130	chr13:40261945-40350912	Strong transcription Enhancers Weak transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs7332791	COG6	cis	Muscle Skeletal	GTEx
rs7332791	COG6	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:78 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:40233000-40295600	Weak transcription	Pancreas	Pancrea
2	chr13:40238000-40291600	Weak transcription	Fetal Intestine Small	intestine
3	chr13:40246400-40297400	Weak transcription	HUVEC	blood vessel
4	chr13:40255000-40291200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr13:40255000-40306000	Weak transcription	Skeletal Muscle Male	skeletal muscle
6	chr13:40255800-40340200	Weak transcription	Psoas Muscle	Psoas
7	chr13:40257600-40310800	Weak transcription	Brain Germinal Matrix	brain
8	chr13:40262600-40294000	Weak transcription	Muscle Satellite Cultured Cells	--
9	chr13:40262800-40291600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
10	chr13:40262800-40291600	Weak transcription	Duodenum Smooth Muscle	Duodenum
11	chr13:40262800-40291800	Weak transcription	Left Ventricle	heart
12	chr13:40262800-40293600	Weak transcription	Rectal Mucosa Donor 31	rectum
13	chr13:40262800-40311000	Weak transcription	Aorta	Aorta
14	chr13:40262800-40311000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
15	chr13:40263000-40297200	Weak transcription	Primary T helper cells PMA-I stimulated	--
16	chr13:40263200-40302600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
17	chr13:40263400-40293400	Weak transcription	Rectal Mucosa Donor 29	rectum
18	chr13:40263400-40293800	Weak transcription	Dnd41	blood
19	chr13:40263600-40291600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
20	chr13:40264600-40293800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
21	chr13:40267000-40297400	Weak transcription	Sigmoid Colon	Sigmoid Colon
22	chr13:40267200-40293400	Weak transcription	NHDF-Ad	bronchial
23	chr13:40267200-40296800	Weak transcription	Brain Hippocampus Middle	brain
24	chr13:40267200-40296800	Weak transcription	Brain Inferior Temporal Lobe	brain
25	chr13:40267200-40297000	Weak transcription	Brain Cingulate Gyrus	brain
26	chr13:40267600-40341200	Weak transcription	Rectal Smooth Muscle	rectum
27	chr13:40269200-40293400	Weak transcription	NH-A	brain
28	chr13:40269600-40291600	Weak transcription	Primary monocytes fromperipheralblood	blood
29	chr13:40272000-40294400	Weak transcription	Primary T cells fromperipheralblood	blood
30	chr13:40272000-40297400	Weak transcription	Ovary	ovary
31	chr13:40272200-40293400	Weak transcription	Osteobl	bone
32	chr13:40273800-40296200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
33	chr13:40274000-40301600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
34	chr13:40274400-40293800	Weak transcription	HSMM	muscle
35	chr13:40274600-40327000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
36	chr13:40281600-40291200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
37	chr13:40282400-40310800	Weak transcription	Right Ventricle	heart
38	chr13:40283600-40310400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
39	chr13:40283600-40311000	Weak transcription	Gastric	stomach
40	chr13:40284000-40298200	Weak transcription	Brain Anterior Caudate	brain
41	chr13:40284200-40310400	Weak transcription	Fetal Stomach	stomach
42	chr13:40284400-40302200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
43	chr13:40285200-40317600	Weak transcription	Small Intestine	intestine
44	chr13:40285800-40292800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
45	chr13:40286200-40332200	Weak transcription	Esophagus	oesophagus
46	chr13:40287000-40303000	Weak transcription	NHLF	lung
47	chr13:40287200-40293200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
48	chr13:40287200-40295200	Weak transcription	HepG2	liver
49	chr13:40287200-40297600	Weak transcription	Duodenum Mucosa	Duodenum
50	chr13:40287400-40296600	Weak transcription	Monocytes-CD14+_RO01746	blood

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