Variant report

Variant	rs9657901
Chromosome Location	chr7:150441163-150441164
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 20 )
Associated
traits (count: 4 )

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

rs_ID	r²[population]
rs10952286	0.92[ASN][1000 genomes]
rs2058448	0.90[CHD][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs2058449	1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs3807383	0.90[CHD][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs4725359	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59953726	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6952662	0.92[ASN][1000 genomes]
rs6955828	1.00[CEU][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6960420	0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6972456	1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs9657876	0.82[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1034409	chr7:149844639-150447071	Flanking Active TSS Active TSS Genic enhancers Enhancers ZNF genes & repeats Bivalent Enhancer Weak transcription Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	75 gene(s)	inside rSNPs	diseases
2	nsv608990	chr7:149961274-150707488	Active TSS Flanking Active TSS Enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers Weak transcription ZNF genes & repeats Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	90 gene(s)	inside rSNPs	diseases
3	nsv1017368	chr7:150016952-150655773	Bivalent Enhancer ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Strong transcription Active TSS Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	80 gene(s)	inside rSNPs	diseases
4	nsv539195	chr7:150016952-150655773	Bivalent Enhancer Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	80 gene(s)	inside rSNPs	diseases
5	esv2758617	chr7:150251949-150463804	Transcr. at gene 5' and 3' Genic enhancers Flanking Active TSS Active TSS Weak transcription Bivalent Enhancer Enhancers ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
6	esv2759573	chr7:150251949-150463804	Weak transcription Active TSS Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
7	nsv1030109	chr7:150312916-150701010	Enhancers Active TSS Weak transcription Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
8	nsv967475	chr7:150323577-150610034	Enhancers Bivalent Enhancer Weak transcription Genic enhancers Transcr. at gene 5' and 3' Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
9	nsv831187	chr7:150325913-150503500	Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Genic enhancers Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs9657901	GIMAP5	cis	cerebellum	SCAN
rs9657901	VIM	trans	lymphoblastoid	seeQTL
rs9657901	ABCB8	cis	cerebellum	SCAN
rs9657901	GIMAP6	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:54 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:150435400-150442800	Transcr. at gene 5' and 3'	Primary T helper cells fromperipheralblood	blood
2	chr7:150435600-150442400	Weak transcription	Ovary	ovary
3	chr7:150435800-150441200	Weak transcription	Gastric	stomach
4	chr7:150435800-150441800	Transcr. at gene 5' and 3'	Primary T killer memory cells from peripheral blood	blood
5	chr7:150436000-150441800	Weak transcription	Fetal Intestine Small	intestine
6	chr7:150436200-150450200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
7	chr7:150436400-150443400	Transcr. at gene 5' and 3'	Primary T helper naive cells fromperipheralblood	blood
8	chr7:150436800-150442200	Transcr. at gene 5' and 3'	Primary T helper cells PMA-I stimulated	--
9	chr7:150436800-150451400	Weak transcription	Brain Substantia Nigra	brain
10	chr7:150437000-150441600	Transcr. at gene 5' and 3'	Primary T helper memory cells from peripheral blood 1	blood
11	chr7:150437000-150450000	Weak transcription	Primary hematopoietic stem cells	blood
12	chr7:150437200-150441400	Transcr. at gene 5' and 3'	Primary T killer naive cells fromperipheralblood	blood
13	chr7:150437200-150441600	Transcr. at gene 5' and 3'	Primary T cells effector/memory enriched fromperipheralblood	blood
14	chr7:150437200-150441600	Transcr. at gene 5' and 3'	Primary mononuclear cells fromperipheralblood	Blood
15	chr7:150437200-150442400	Transcr. at gene 5' and 3'	Primary T helper memory cells from peripheral blood 2	blood
16	chr7:150437200-150442400	Transcr. at gene 5' and 3'	Primary T helper naive cells from peripheral blood	blood
17	chr7:150437200-150442600	Transcr. at gene 5' and 3'	Primary T helper 17 cells PMA-I stimulated	--
18	chr7:150437200-150443200	Transcr. at gene 5' and 3'	Primary T cells from cord blood	blood
19	chr7:150437400-150441400	Weak transcription	Colonic Mucosa	Colon
20	chr7:150437400-150441800	Weak transcription	Thymus	Thymus
21	chr7:150437400-150443000	Transcr. at gene 5' and 3'	Primary T regulatory cells fromperipheralblood	blood
22	chr7:150437400-150443200	Transcr. at gene 5' and 3'	Primary T cells fromperipheralblood	blood
23	chr7:150437600-150443200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
24	chr7:150437600-150443800	Weak transcription	Small Intestine	intestine
25	chr7:150438000-150441400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
26	chr7:150438000-150441800	Genic enhancers	Adipose Nuclei	Adipose
27	chr7:150438000-150442400	Strong transcription	Monocytes-CD14+_RO01746	blood
28	chr7:150438600-150441200	Genic enhancers	Fetal Adrenal Gland	Adrenal Gland
29	chr7:150438600-150442800	Genic enhancers	Spleen	Spleen
30	chr7:150438800-150441600	Enhancers	Right Atrium	heart
31	chr7:150439000-150441200	Enhancers	Stomach Smooth Muscle	stomach
32	chr7:150439600-150441200	Enhancers	Colon Smooth Muscle	Colon
33	chr7:150439800-150443400	Enhancers	Fetal Heart	heart
34	chr7:150440000-150441600	Weak transcription	Rectal Mucosa Donor 31	rectum
35	chr7:150440200-150443000	Weak transcription	Rectal Mucosa Donor 29	rectum
36	chr7:150440400-150442200	Weak transcription	Esophagus	oesophagus
37	chr7:150440400-150446200	Weak transcription	Liver	Liver
38	chr7:150440600-150441200	Weak transcription	Fetal Muscle Trunk	muscle
39	chr7:150440600-150441400	Strong transcription	Fetal Thymus	thymus
40	chr7:150440600-150442000	Weak transcription	Skeletal Muscle Female	skeletal muscle
41	chr7:150440600-150442200	Strong transcription	Primary monocytes fromperipheralblood	blood
42	chr7:150440600-150442400	Weak transcription	Duodenum Smooth Muscle	Duodenum
43	chr7:150440600-150442800	Genic enhancers	Dnd41	blood
44	chr7:150440600-150443400	Enhancers	Right Ventricle	heart
45	chr7:150440600-150449200	Weak transcription	Sigmoid Colon	Sigmoid Colon
46	chr7:150440800-150441400	Enhancers	Fetal Muscle Leg	muscle
47	chr7:150440800-150441600	Enhancers	Left Ventricle	heart
48	chr7:150441000-150441200	Strong transcription	Lung	lung
49	chr7:150441000-150441200	Enhancers	Pancreas	Pancrea
50	chr7:150441000-150441400	Enhancers	Duodenum Mucosa	Duodenum

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