Variant report

Variant	rs12531907
Chromosome Location	chr7:27904523-27904524
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 31 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs10951186	1.00[CEU][hapmap]
rs11520772	0.89[CEU][hapmap];0.80[EUR][1000 genomes]
rs12154776	0.91[EUR][1000 genomes]
rs12531244	1.00[CEU][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12537135	1.00[EUR][1000 genomes]
rs12700847	1.00[CEU][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs12700848	1.00[CEU][hapmap];0.92[EUR][1000 genomes]
rs13224500	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs13237769	0.95[EUR][1000 genomes]
rs13247831	0.81[EUR][1000 genomes]
rs1544413	0.83[EUR][1000 genomes]
rs1544414	0.83[EUR][1000 genomes]
rs17155954	1.00[CEU][hapmap];0.92[EUR][1000 genomes]
rs17613082	0.83[EUR][1000 genomes]
rs17613350	0.83[EUR][1000 genomes]
rs34015232	0.92[EUR][1000 genomes]
rs34594641	0.83[EUR][1000 genomes]
rs35801744	0.86[EUR][1000 genomes]
rs35971552	0.98[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs36057260	0.83[EUR][1000 genomes]
rs4455744	0.91[EUR][1000 genomes]
rs57088391	0.99[EUR][1000 genomes]
rs6963753	1.00[CEU][hapmap];0.99[EUR][1000 genomes]
rs71539544	0.81[EUR][1000 genomes]
rs739898	1.00[CEU][hapmap];0.91[EUR][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	nsv949025	chr7:27578167-28075172	Active TSS Weak transcription Enhancers Genic enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
2	nsv1028469	chr7:27767795-27939667	Flanking Active TSS Weak transcription Enhancers Strong transcription Active TSS 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 miRNA target site	20 gene(s)	inside rSNPs	diseases
3	esv2758109	chr7:27793616-27972869	Weak transcription Genic enhancers Enhancers Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
4	esv2759520	chr7:27793616-27972869	Weak transcription Strong transcription Enhancers Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
5	nsv1018550	chr7:27844038-27925645	Flanking Active TSS Enhancers Weak transcription Strong transcription Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
6	nsv1030685	chr7:27844038-28177301	Active TSS Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers 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	9 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs12531907	HIBADH	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:49 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:27875200-27913000	Weak transcription	Right Atrium	heart
2	chr7:27876200-27913000	Weak transcription	Fetal Heart	heart
3	chr7:27880600-27913600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
4	chr7:27880800-27913200	Weak transcription	Aorta	Aorta
5	chr7:27881000-27905600	Weak transcription	Primary T cells fromperipheralblood	blood
6	chr7:27882800-27912000	Weak transcription	Brain Anterior Caudate	brain
7	chr7:27889200-27912000	Weak transcription	Brain Cingulate Gyrus	brain
8	chr7:27893200-27909000	Weak transcription	Right Ventricle	heart
9	chr7:27896000-27908200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
10	chr7:27896200-27913600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
11	chr7:27896600-27907200	Weak transcription	Primary T cells from cord blood	blood
12	chr7:27897200-27906400	Weak transcription	Spleen	Spleen
13	chr7:27897200-27907400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
14	chr7:27897200-27909000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
15	chr7:27897200-27912000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
16	chr7:27897200-27915200	Weak transcription	Gastric	stomach
17	chr7:27898400-27907200	Weak transcription	Fetal Muscle Leg	muscle
18	chr7:27899400-27912600	Weak transcription	Rectal Smooth Muscle	rectum
19	chr7:27900600-27910200	Weak transcription	Pancreas	Pancrea
20	chr7:27900600-27911400	Weak transcription	Adipose Nuclei	Adipose
21	chr7:27901000-27908000	Weak transcription	Fetal Muscle Trunk	muscle
22	chr7:27901200-27913400	Weak transcription	Muscle Satellite Cultured Cells	--
23	chr7:27901400-27908000	Weak transcription	Primary T helper cells fromperipheralblood	blood
24	chr7:27901400-27913400	Weak transcription	Duodenum Smooth Muscle	Duodenum
25	chr7:27901400-27913800	Weak transcription	NHLF	lung
26	chr7:27901600-27905800	Weak transcription	Brain Inferior Temporal Lobe	brain
27	chr7:27901600-27912200	Strong transcription	Primary B cells from cord blood	blood
28	chr7:27901800-27909600	Strong transcription	Primary B cells from peripheral blood	blood
29	chr7:27902200-27911600	Weak transcription	Colon Smooth Muscle	Colon
30	chr7:27902600-27908600	Strong transcription	Monocytes-CD14+_RO01746	blood
31	chr7:27903200-27911400	Weak transcription	Lung	lung
32	chr7:27903800-27906600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
33	chr7:27903800-27910600	Weak transcription	Fetal Stomach	stomach
34	chr7:27903800-27913800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
35	chr7:27903800-27913800	Weak transcription	HMEC	breast
36	chr7:27903800-27914000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
37	chr7:27904000-27905400	Weak transcription	Primary monocytes fromperipheralblood	blood
38	chr7:27904000-27905800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
39	chr7:27904000-27913600	Weak transcription	Stomach Smooth Muscle	stomach
40	chr7:27904000-27916400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
41	chr7:27904200-27905000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
42	chr7:27904200-27908000	Weak transcription	H1 Cell Line	embryonic stem cell
43	chr7:27904200-27910200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
44	chr7:27904200-27911400	Weak transcription	Left Ventricle	heart
45	chr7:27904200-27913400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
46	chr7:27904200-27913600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
47	chr7:27904200-27913600	Weak transcription	Osteobl	bone
48	chr7:27904400-27905000	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
49	chr7:27904400-27905200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood

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