Variant report

Variant	rs32982
Chromosome Location	chr5:80122493-80122494
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 17 )
Associated
traits (count: 5 )

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs1644201	0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs245338	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs245343	0.88[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs245345	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs245346	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs245351	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs245362	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs245378	0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs32991	0.88[AFR][1000 genomes];0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs32993	0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs33002	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[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	nsv1024844	chr5:79862428-80860430	Weak transcription Strong transcription Enhancers Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
2	nsv882231	chr5:79984714-80187929	Weak transcription Strong transcription ZNF genes & repeats Enhancers Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv598747	chr5:79996632-80322712	Weak transcription Enhancers Strong transcription ZNF genes & repeats Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
4	nsv1016100	chr5:80023679-80254194	Strong transcription Enhancers Weak transcription ZNF genes & repeats Genic enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
5	nsv1021784	chr5:80023679-80313586	ZNF genes & repeats Bivalent Enhancer Strong transcription Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
6	nsv537787	chr5:80023679-80313586	Weak transcription Enhancers Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases

mRNA abundance (count:5)

SNP	Gene	Cis/trans	Tissue	Source
rs32982	DHFR///LOC643509	Cis_1M	lymphoblastoid	RTeQTL
rs32982	DHFR	cis	Adipose Subcutaneous	GTEx
rs32982	DHFR	cis	Muscle Skeletal	GTEx
rs32982	MSH3	Cis_1M	lymphoblastoid	RTeQTL
rs32982	DHFR	cis	Nerve Tibial	GTEx

Chromatin state (count:74 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:80042800-80173400	Weak transcription	Right Ventricle	heart
2	chr5:80085200-80127600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
3	chr5:80087400-80132800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
4	chr5:80087800-80167400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
5	chr5:80090400-80124600	Weak transcription	Colon Smooth Muscle	Colon
6	chr5:80090600-80124000	Weak transcription	Primary T helper cells PMA-I stimulated	--
7	chr5:80091200-80144400	Weak transcription	Stomach Smooth Muscle	stomach
8	chr5:80091400-80124600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
9	chr5:80091400-80124600	Weak transcription	Rectal Mucosa Donor 31	rectum
10	chr5:80091400-80124600	Weak transcription	Rectal Smooth Muscle	rectum
11	chr5:80091400-80181000	Weak transcription	Small Intestine	intestine
12	chr5:80091800-80125200	Weak transcription	Osteobl	bone
13	chr5:80093000-80124200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
14	chr5:80093800-80123800	Weak transcription	Pancreas	Pancrea
15	chr5:80094800-80124000	Weak transcription	GM12878-XiMat	blood
16	chr5:80097000-80124400	Weak transcription	Brain Cingulate Gyrus	brain
17	chr5:80103800-80144600	Weak transcription	Gastric	stomach
18	chr5:80107200-80123800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
19	chr5:80110000-80123800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
20	chr5:80110000-80124800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
21	chr5:80110600-80124600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
22	chr5:80110600-80145200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
23	chr5:80110800-80124200	Weak transcription	Fetal Muscle Trunk	muscle
24	chr5:80110800-80124400	Weak transcription	Skeletal Muscle Female	skeletal muscle
25	chr5:80110800-80124600	Weak transcription	Placenta	Placenta
26	chr5:80110800-80124800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
27	chr5:80111000-80123600	Weak transcription	Primary neutrophils fromperipheralblood	blood
28	chr5:80111000-80123600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
29	chr5:80111000-80123800	Weak transcription	Primary T helper cells fromperipheralblood	blood
30	chr5:80111000-80124000	Weak transcription	HepG2	liver
31	chr5:80111400-80124600	Weak transcription	Rectal Mucosa Donor 29	rectum
32	chr5:80111400-80131800	Weak transcription	Hela-S3	cervix
33	chr5:80111600-80124200	Weak transcription	Duodenum Smooth Muscle	Duodenum
34	chr5:80112000-80123800	Weak transcription	Duodenum Mucosa	Duodenum
35	chr5:80112200-80124400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
36	chr5:80113200-80123800	Weak transcription	Primary monocytes fromperipheralblood	blood
37	chr5:80113200-80124000	Weak transcription	Primary T cells fromperipheralblood	blood
38	chr5:80113200-80125200	Weak transcription	Fetal Kidney	kidney
39	chr5:80113200-80128200	Weak transcription	HSMM	muscle
40	chr5:80114000-80124600	Weak transcription	Fetal Stomach	stomach
41	chr5:80117000-80124200	Weak transcription	Skeletal Muscle Male	skeletal muscle
42	chr5:80117800-80124000	Weak transcription	Brain Inferior Temporal Lobe	brain
43	chr5:80118000-80123800	Weak transcription	Liver	Liver
44	chr5:80118200-80124000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
45	chr5:80118800-80123400	Weak transcription	Primary B cells from cord blood	blood
46	chr5:80118800-80124400	Weak transcription	Primary T cells from cord blood	blood
47	chr5:80118800-80124400	Weak transcription	Left Ventricle	heart
48	chr5:80118800-80124600	Weak transcription	Aorta	Aorta
49	chr5:80119000-80124400	Weak transcription	Primary hematopoietic stem cells	blood
50	chr5:80119000-80124800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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