Variant report

Variant	rs7615432
Chromosome Location	chr3:60065257-60065258
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 18 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs11918446	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17062141	0.85[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.86[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs17062148	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.90[AFR][1000 genomes];0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17062150	0.90[AFR][1000 genomes];0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3845977	1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];0.94[GIH][hapmap];1.00[JPT][hapmap];0.92[MEX][hapmap];1.00[TSI][hapmap];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4679628	0.82[CHB][hapmap];0.92[JPT][hapmap];0.87[ASN][1000 genomes]
rs6766477	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs73830792	0.89[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs7610403	0.80[CEU][hapmap];0.92[MEX][hapmap]
rs7615522	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.94[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];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7615700	0.94[CEU][hapmap]
rs7643042	0.80[CEU][hapmap]
rs7646436	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9817116	1.00[ASW][hapmap];0.92[CHD][hapmap];0.92[JPT][hapmap];0.88[LWK][hapmap];0.85[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv428085	chr3:59782509-60070116	Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Active TSS Genic enhancers ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv1014983	chr3:59884024-60558331	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv590387	chr3:59890976-60481459	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	nsv834707	chr3:60005679-60184046	Weak transcription Enhancers Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7615432	FEZF2	cis	cerebellum	SCAN

Chromatin state (count:29 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:60061800-60066400	Weak transcription	Brain Substantia Nigra	brain
2	chr3:60061800-60068400	Flanking Active TSS	Dnd41	blood
3	chr3:60062400-60066200	Weak transcription	Stomach Mucosa	stomach
4	chr3:60062400-60066400	Weak transcription	Brain Anterior Caudate	brain
5	chr3:60062400-60066400	Weak transcription	Duodenum Mucosa	Duodenum
6	chr3:60063000-60066000	Weak transcription	Primary B cells from cord blood	blood
7	chr3:60063400-60066600	Active TSS	Primary T helper naive cells from peripheral blood	blood
8	chr3:60063600-60066000	Active TSS	Primary T helper cells PMA-I stimulated	--
9	chr3:60063600-60066800	Active TSS	Primary T cells fromperipheralblood	blood
10	chr3:60063800-60066400	Active TSS	Primary T regulatory cells fromperipheralblood	blood
11	chr3:60063800-60068000	Flanking Active TSS	Primary T cells from cord blood	blood
12	chr3:60064200-60066200	Active TSS	Primary T killer memory cells from peripheral blood	blood
13	chr3:60064400-60066000	Active TSS	Primary T helper cells fromperipheralblood	blood
14	chr3:60064400-60066200	Active TSS	Primary T helper memory cells from peripheral blood 1	blood
15	chr3:60064400-60066600	Active TSS	Primary T helper naive cells fromperipheralblood	blood
16	chr3:60064600-60065600	Flanking Active TSS	Fetal Thymus	thymus
17	chr3:60064600-60068400	Enhancers	Primary B cells from peripheral blood	blood
18	chr3:60064800-60065600	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
19	chr3:60064800-60066200	Enhancers	Primary T killer naive cells fromperipheralblood	blood
20	chr3:60064800-60068000	Enhancers	Primary hematopoietic stem cells	blood
21	chr3:60064800-60068000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
22	chr3:60065000-60065400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
23	chr3:60065000-60067200	Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
24	chr3:60065200-60065400	Enhancers	Primary hematopoietic stem cells short term culture	blood
25	chr3:60065200-60065400	Flanking Active TSS	Primary T helper memory cells from peripheral blood 2	blood
26	chr3:60065200-60065400	Flanking Active TSS	Thymus	Thymus
27	chr3:60065200-60065800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
28	chr3:60065200-60065800	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
29	chr3:60065200-60066200	Weak transcription	Cortex derived primary cultured neurospheres	brain

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