Variant report

Variant	rs9638403
Chromosome Location	chr7:64368112-64368113
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr7:64365308..64368250-chr7:64464896..64466671,2	K562	blood:

Extended variants
information (count: 43 )
Associated
traits (count: 20 )

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

rs_ID	r²[population]
rs10245594	0.83[ASN][1000 genomes]
rs11760831	0.82[ASN][1000 genomes]
rs11768507	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13222235	0.81[ASN][1000 genomes]
rs13223958	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13225722	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13233451	0.81[ASN][1000 genomes]
rs1524824	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs17708491	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2091228	0.80[ASN][1000 genomes]
rs2902611	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs34045040	0.89[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs34725314	0.89[ASN][1000 genomes]
rs34864313	0.93[ASN][1000 genomes]
rs35802638	0.89[ASN][1000 genomes]
rs35916947	0.87[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4718145	0.87[ASN][1000 genomes]
rs4718166	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4718167	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62455064	0.98[ASN][1000 genomes]
rs62458431	0.89[ASN][1000 genomes]
rs7796966	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7802672	0.84[AMR][1000 genomes]
rs7805275	0.84[AMR][1000 genomes]
rs9638208	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:18 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2422405	chr7:63709739-64632341	Enhancers Bivalent Enhancer Active TSS Weak transcription ZNF genes & repeats Strong transcription Bivalent/Poised TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	59 gene(s)	inside rSNPs	diseases
2	nsv427787	chr7:63741770-64419520	Weak transcription Strong transcription Bivalent Enhancer Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
3	nsv464518	chr7:63881238-64506904	Enhancers ZNF genes & repeats Bivalent/Poised TSS Weak transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
4	nsv607312	chr7:63881238-64506904	Active TSS Weak transcription Flanking Active TSS Enhancers Genic enhancers Strong transcription ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
5	nsv888275	chr7:63990100-64468590	Strong transcription Active TSS Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
6	nsv888276	chr7:63990100-64511564	Strong transcription ZNF genes & repeats Weak transcription Enhancers Bivalent/Poised TSS Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
7	nsv1022042	chr7:64226499-64566945	Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Enhancers Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
8	nsv1026390	chr7:64240323-64414364	Active TSS Bivalent Enhancer Weak transcription Flanking Active TSS Strong transcription Enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
9	nsv1033291	chr7:64273434-64406276	Active TSS Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
10	nsv508457	chr7:64286522-64391112	Strong transcription Active TSS Enhancers Bivalent Enhancer ZNF genes & repeats Weak transcription Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
11	nsv888282	chr7:64299645-64511564	Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Weak transcription Active TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
12	nsv1018967	chr7:64318129-64380869	Enhancers Flanking Active TSS Strong transcription Weak transcription ZNF genes & repeats Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
13	esv3506582	chr7:64323055-64563984	ZNF genes & repeats Weak transcription Enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
14	esv3506583	chr7:64323055-64563984	Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Weak transcription Strong transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
15	nsv1019180	chr7:64329889-64512842	Active TSS Enhancers Weak transcription Flanking Active TSS Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
16	nsv888283	chr7:64343985-64511564	Weak transcription Active TSS ZNF genes & repeats Enhancers Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
17	esv2752165	chr7:64345822-65208605	Flanking Active TSS Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Enhancers Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
18	nsv981497	chr7:64366868-64385550	ZNF genes & repeats Weak transcription Strong transcription Enhancers Genic enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3'	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases

mRNA abundance (count:20)

SNP	Gene	Cis/trans	Tissue	Source
rs9638403	RP11-797H7.3	cis	Esophagus Muscularis	GTEx
rs9638403	SEPHS1P1	cis	Nerve Tibial	GTEx
rs9638403	RP11-797H7.3	cis	Esophagus Mucosa	GTEx
rs9638403	RP11-797H7.3	cis	Stomach	GTEx
rs9638403	RP11-797H7.3	cis	lung	GTEx
rs9638403	INTS4L1	cis	Skin Sun Exposed Lower leg	GTEx
rs9638403	RP11-797H7.3	cis	Heart Left Ventricle	GTEx
rs9638403	CCT6P3	cis	Esophagus Mucosa	GTEx
rs9638403	RP11-797H7.3	cis	Artery Tibial	GTEx
rs9638403	RP11-797H7.3	cis	Thyroid	GTEx
rs9638403	RP11-797H7.3	cis	Skin Sun Exposed Lower leg	GTEx
rs9638403	RP11-797H7.3	cis	Muscle Skeletal	GTEx
rs9638403	RP11-797H7.3	cis	Nerve Tibial	GTEx
rs9638403	SEPHS1P1	cis	Artery Tibial	GTEx
rs9638403	CCT6P3	cis	Adipose Subcutaneous	GTEx
rs9638403	RP11-797H7.5	cis	Thyroid	GTEx
rs9638403	SEPHS1P1	cis	Muscle Skeletal	GTEx
rs9638403	RP11-797H7.5	cis	lung	GTEx
rs9638403	RP11-797H7.3	cis	Adipose Subcutaneous	GTEx
rs9638403	CCT6P3	cis	Nerve Tibial	GTEx

Chromatin state (count:86 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:64364200-64368200	Weak transcription	Left Ventricle	heart
2	chr7:64364200-64368800	Weak transcription	Pancreas	Pancrea
3	chr7:64364200-64380400	Weak transcription	Esophagus	oesophagus
4	chr7:64364400-64369600	Enhancers	Primary T helper cells fromperipheralblood	blood
5	chr7:64364400-64376800	Weak transcription	Ovary	ovary
6	chr7:64364400-64379000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
7	chr7:64364400-64380400	Weak transcription	Aorta	Aorta
8	chr7:64364400-64380400	Weak transcription	Pancreatic Islets	Pancreatic Islet
9	chr7:64364400-64382600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
10	chr7:64364600-64368200	Weak transcription	Skeletal Muscle Male	skeletal muscle
11	chr7:64364600-64368200	Weak transcription	Stomach Mucosa	stomach
12	chr7:64364600-64368400	Weak transcription	Monocytes-CD14+_RO01746	blood
13	chr7:64364600-64368400	Weak transcription	NHEK	skin
14	chr7:64364600-64372400	Weak transcription	Fetal Stomach	stomach
15	chr7:64364600-64374000	Weak transcription	Colon Smooth Muscle	Colon
16	chr7:64364600-64383200	Weak transcription	Muscle Satellite Cultured Cells	--
17	chr7:64364600-64386400	Weak transcription	HUVEC	blood vessel
18	chr7:64364600-64387200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
19	chr7:64364800-64368200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
20	chr7:64364800-64368400	Weak transcription	Sigmoid Colon	Sigmoid Colon
21	chr7:64364800-64372400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
22	chr7:64364800-64373800	Weak transcription	Skeletal Muscle Female	skeletal muscle
23	chr7:64364800-64379200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
24	chr7:64364800-64379200	Weak transcription	Adipose Nuclei	Adipose
25	chr7:64364800-64379800	Weak transcription	Fetal Muscle Trunk	muscle
26	chr7:64364800-64380200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
27	chr7:64364800-64380600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
28	chr7:64365000-64368600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
29	chr7:64365000-64369200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
30	chr7:64365000-64374000	Weak transcription	Thymus	Thymus
31	chr7:64365000-64378600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
32	chr7:64365400-64368400	Weak transcription	Primary hematopoietic stem cells	blood
33	chr7:64365600-64368200	Enhancers	Cortex derived primary cultured neurospheres	brain
34	chr7:64365600-64369400	Weak transcription	Fetal Thymus	thymus
35	chr7:64365800-64380800	Weak transcription	Spleen	Spleen
36	chr7:64366200-64368600	Enhancers	Brain Germinal Matrix	brain
37	chr7:64366200-64371800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
38	chr7:64366200-64373800	Weak transcription	H1 Cell Line	embryonic stem cell
39	chr7:64366200-64374000	Weak transcription	Hela-S3	cervix
40	chr7:64366200-64377800	Weak transcription	Primary T cells fromperipheralblood	blood
41	chr7:64366200-64380400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
42	chr7:64366400-64368800	Enhancers	Primary T killer naive cells fromperipheralblood	blood
43	chr7:64366600-64368600	Enhancers	ES-I3 Cell Line	embryonic stem cell
44	chr7:64366800-64368800	Enhancers	Primary T helper naive cells fromperipheralblood	blood
45	chr7:64367000-64368600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
46	chr7:64367000-64369000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
47	chr7:64367000-64369000	Enhancers	HSMM	muscle
48	chr7:64367200-64368200	Enhancers	Primary T helper naive cells from peripheral blood	blood
49	chr7:64367200-64368800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
50	chr7:64367200-64369000	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived

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