Variant report

Variant	rs13353710
Chromosome Location	chr4:169401199-169401200
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 12 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs10002308	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12331721	1.00[CHB][hapmap];0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17054232	0.83[GIH][hapmap];0.85[MEX][hapmap];0.83[TSI][hapmap];0.81[AMR][1000 genomes]
rs2029386	0.83[ASN][1000 genomes]
rs2634959	0.81[GIH][hapmap]
rs2710831	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2710832	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs28524000	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs28675009	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs55764504	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9999142	0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv881379	chr4:169361897-169504099	Active TSS Flanking Active TSS Weak transcription Strong transcription Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs13353710	SPOCK3	cis	parietal	SCAN

Chromatin state (count:110 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:169330400-169401200	Weak transcription	Brain Substantia Nigra	brain
2	chr4:169338600-169401200	Weak transcription	Gastric	stomach
3	chr4:169344200-169401200	Weak transcription	Aorta	Aorta
4	chr4:169399400-169401200	Weak transcription	Spleen	Spleen
5	chr4:169400000-169401200	Enhancers	Stomach Mucosa	stomach
6	chr4:169400000-169402000	Active TSS	Duodenum Mucosa	Duodenum
7	chr4:169400000-169402400	Active TSS	Placenta	Placenta
8	chr4:169400000-169402400	Active TSS	Rectal Mucosa Donor 29	rectum
9	chr4:169400200-169401800	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
10	chr4:169400200-169402600	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
11	chr4:169400400-169401200	Active TSS	GM12878-XiMat	blood
12	chr4:169400400-169402200	Active TSS	Fetal Kidney	kidney
13	chr4:169400400-169402200	Active TSS	Fetal Muscle Leg	muscle
14	chr4:169400400-169402400	Active TSS	Stomach Smooth Muscle	stomach
15	chr4:169400400-169402600	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
16	chr4:169400400-169402600	Active TSS	Brain Anterior Caudate	brain
17	chr4:169400400-169402600	Active TSS	Brain Inferior Temporal Lobe	brain
18	chr4:169400400-169402600	Active TSS	Colonic Mucosa	Colon
19	chr4:169400400-169402600	Active TSS	Rectal Smooth Muscle	rectum
20	chr4:169400400-169402800	Active TSS	Duodenum Smooth Muscle	Duodenum
21	chr4:169400600-169401200	Active TSS	Primary mononuclear cells fromperipheralblood	Blood
22	chr4:169400600-169401200	Weak transcription	Fetal Heart	heart
23	chr4:169400600-169401800	Active TSS	Primary hematopoietic stem cells short term culture	blood
24	chr4:169400600-169402000	Active TSS	HSMM	muscle
25	chr4:169400600-169402000	Active TSS	HSMMtube	muscle
26	chr4:169400600-169402000	Active TSS	NHLF	lung
27	chr4:169400600-169402200	Active TSS	Adipose Nuclei	Adipose
28	chr4:169400600-169402200	Active TSS	Hela-S3	cervix
29	chr4:169400600-169402400	Active TSS	Right Ventricle	heart
30	chr4:169400600-169402400	Active TSS	Osteobl	bone
31	chr4:169400600-169402600	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
32	chr4:169400600-169402600	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
33	chr4:169400600-169402600	Active TSS	Colon Smooth Muscle	Colon
34	chr4:169400600-169402600	Active TSS	Fetal Intestine Large	intestine
35	chr4:169400600-169402600	Active TSS	Pancreatic Islets	Pancreatic Islet
36	chr4:169400600-169402600	Active TSS	Rectal Mucosa Donor 31	rectum
37	chr4:169400600-169402600	Active TSS	A549	lung
38	chr4:169400600-169402600	Active TSS	NHEK	skin
39	chr4:169400800-169401200	Active TSS	Primary B cells from cord blood	blood
40	chr4:169400800-169401200	Active TSS	Primary T helper naive cells fromperipheralblood	blood
41	chr4:169400800-169401800	Active TSS	Primary T cells from cord blood	blood
42	chr4:169400800-169401800	Active TSS	Muscle Satellite Cultured Cells	--
43	chr4:169400800-169401800	Active TSS	Monocytes-CD14+_RO01746	blood
44	chr4:169400800-169402000	Active TSS	Primary T helper cells PMA-I stimulated	--
45	chr4:169400800-169402000	Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
46	chr4:169400800-169402000	Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
47	chr4:169400800-169402000	Active TSS	Liver	Liver
48	chr4:169400800-169402000	Active TSS	HUVEC	blood vessel
49	chr4:169400800-169402200	Active TSS	Dnd41	blood
50	chr4:169400800-169402200	Active TSS	NH-A	brain

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