Variant report

Variant	rs360935
Chromosome Location	chr4:152913747-152913748
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 22 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs11732516	1.00[JPT][hapmap]
rs13129634	0.82[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs1364870	0.97[AFR][1000 genomes];0.88[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs1425398	0.94[ASN][1000 genomes]
rs173405	0.84[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs17361440	1.00[JPT][hapmap]
rs28429024	0.97[AFR][1000 genomes];0.88[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs360909	1.00[CHB][hapmap];0.92[GIH][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap]
rs360911	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs360925	0.82[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs360928	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs360934	0.83[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs360951	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs361146	0.88[ASN][1000 genomes]
rs566370	0.81[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs6844372	0.87[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs6845076	0.88[ASN][1000 genomes]
rs879169	0.94[ASN][1000 genomes]
rs9991939	0.94[AFR][1000 genomes];0.83[AMR][1000 genomes];0.94[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv432644	chr4:152635395-153023402	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
2	nsv880341	chr4:152861685-153110256	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
3	nsv931416	chr4:152877808-153440553	Genic enhancers Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	20 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs360935	FGG	cis	cerebellum	SCAN

Chromatin state (count:59 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:152910000-152915200	Enhancers	Fetal Brain Male	brain
2	chr4:152910000-152915800	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
3	chr4:152910200-152915200	Enhancers	Primary T helper cells fromperipheralblood	blood
4	chr4:152910400-152914000	Enhancers	NHEK	skin
5	chr4:152910400-152915600	Enhancers	Primary T helper naive cells fromperipheralblood	blood
6	chr4:152910400-152915800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
7	chr4:152910400-152915800	Enhancers	Primary T killer memory cells from peripheral blood	blood
8	chr4:152910600-152914200	Enhancers	HMEC	breast
9	chr4:152910600-152914400	Enhancers	HSMMtube	muscle
10	chr4:152910600-152915600	Enhancers	Primary T helper cells PMA-I stimulated	--
11	chr4:152910600-152916000	Enhancers	Primary T helper naive cells from peripheral blood	blood
12	chr4:152910800-152914800	Weak transcription	Spleen	Spleen
13	chr4:152911000-152915600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
14	chr4:152911200-152914600	Enhancers	Primary T regulatory cells fromperipheralblood	blood
15	chr4:152911400-152914000	Enhancers	Rectal Smooth Muscle	rectum
16	chr4:152911400-152915800	Enhancers	Dnd41	blood
17	chr4:152911600-152915400	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
18	chr4:152911800-152914200	Enhancers	Fetal Heart	heart
19	chr4:152912000-152914600	Enhancers	Cortex derived primary cultured neurospheres	brain
20	chr4:152912200-152913800	Enhancers	ES-I3 Cell Line	embryonic stem cell
21	chr4:152912200-152914600	Enhancers	Fetal Brain Female	brain
22	chr4:152912400-152913800	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
23	chr4:152912400-152914400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
24	chr4:152912400-152914800	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
25	chr4:152912600-152913800	Enhancers	Skeletal Muscle Female	skeletal muscle
26	chr4:152912600-152914800	Enhancers	Brain Germinal Matrix	brain
27	chr4:152912600-152915600	Enhancers	Primary T cells fromperipheralblood	blood
28	chr4:152912800-152913800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
29	chr4:152912800-152913800	Enhancers	iPS-18 Cell Line	embryonic stem cell
30	chr4:152912800-152913800	Enhancers	Brain Inferior Temporal Lobe	brain
31	chr4:152912800-152914600	Enhancers	H1 Cell Line	embryonic stem cell
32	chr4:152912800-152914600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
33	chr4:152912800-152914800	Enhancers	iPS-15b Cell Line	embryonic stem cell
34	chr4:152912800-152914800	Weak transcription	Thymus	Thymus
35	chr4:152912800-152915400	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
36	chr4:152912800-152915600	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
37	chr4:152913000-152914400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
38	chr4:152913000-152914400	Enhancers	Brain Anterior Caudate	brain
39	chr4:152913000-152914600	Enhancers	HUES64 Cell Line	embryonic stem cell
40	chr4:152913000-152915000	Enhancers	HUES48 Cell Line	embryonic stem cell
41	chr4:152913200-152914000	Weak transcription	Brain Angular Gyrus	brain
42	chr4:152913200-152914600	Enhancers	iPS-20b Cell Line	embryonic stem cell
43	chr4:152913400-152914000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
44	chr4:152913400-152914000	Weak transcription	Brain Cingulate Gyrus	brain
45	chr4:152913400-152914200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
46	chr4:152913400-152914400	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
47	chr4:152913400-152914800	Weak transcription	Stomach Smooth Muscle	stomach
48	chr4:152913400-152915600	Enhancers	Primary T cells from cord blood	blood
49	chr4:152913600-152913800	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
50	chr4:152913600-152913800	Enhancers	Brain Hippocampus Middle	brain

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