Variant report

Variant	rs6779755
Chromosome Location	chr3:60031959-60031960
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 24 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs13061158	0.84[EUR][1000 genomes]
rs13062539	0.80[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs13084717	1.00[CEU][hapmap];0.80[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs13100563	0.81[CEU][hapmap];0.80[EUR][1000 genomes]
rs17062101	0.81[CEU][hapmap];1.00[MEX][hapmap];0.80[EUR][1000 genomes]
rs17256807	0.88[EUR][1000 genomes]
rs17257269	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs17258256	1.00[CEU][hapmap];1.00[MEX][hapmap];0.85[EUR][1000 genomes]
rs17258709	0.81[EUR][1000 genomes]
rs17258872	0.81[EUR][1000 genomes]
rs34732137	0.85[EUR][1000 genomes]
rs35066861	0.96[EUR][1000 genomes]
rs35226385	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35755790	0.80[EUR][1000 genomes]
rs3856662	1.00[CEU][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs67030566	0.85[EUR][1000 genomes]
rs6779716	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs67984492	0.81[EUR][1000 genomes]
rs73093924	0.80[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 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
5	nsv876839	chr3:60024084-60039488	Flanking Active TSS Enhancers Genic enhancers Weak transcription ZNF genes & repeats Active TSS Strong transcription	n/a	n/a	inside rSNPs	diseases

No data

Chromatin state (count:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:60026600-60033600	Enhancers	Primary T helper cells fromperipheralblood	blood
2	chr3:60030400-60032200	ZNF genes & repeats	Dnd41	blood
3	chr3:60030600-60032000	Genic enhancers	Primary T helper naive cells fromperipheralblood	blood
4	chr3:60030600-60034000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
5	chr3:60031400-60033800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
6	chr3:60031600-60032000	Enhancers	Liver	Liver
7	chr3:60031600-60032000	Weak transcription	Thymus	Thymus
8	chr3:60031600-60032200	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
9	chr3:60031600-60032200	Enhancers	Fetal Muscle Leg	muscle
10	chr3:60031600-60032400	Active TSS	Brain Angular Gyrus	brain
11	chr3:60031600-60032400	Active TSS	Brain Cingulate Gyrus	brain
12	chr3:60031600-60032400	Active TSS	Brain Hippocampus Middle	brain
13	chr3:60031600-60032600	Active TSS	Pancreatic Islets	Pancreatic Islet
14	chr3:60031600-60033600	Enhancers	Primary T helper naive cells from peripheral blood	blood
15	chr3:60031600-60033600	Enhancers	Primary T regulatory cells fromperipheralblood	blood
16	chr3:60031600-60033600	Enhancers	Primary T killer memory cells from peripheral blood	blood
17	chr3:60031600-60035200	Enhancers	Fetal Thymus	thymus
18	chr3:60031800-60032200	Flanking Active TSS	Cortex derived primary cultured neurospheres	brain
19	chr3:60031800-60032200	Active TSS	Brain Anterior Caudate	brain
20	chr3:60031800-60032200	Flanking Active TSS	Brain Germinal Matrix	brain
21	chr3:60031800-60032200	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
22	chr3:60031800-60032200	Active TSS	Rectal Mucosa Donor 29	rectum
23	chr3:60031800-60032200	Active TSS	Rectal Mucosa Donor 31	rectum
24	chr3:60031800-60032400	Active TSS	Brain Inferior Temporal Lobe	brain
25	chr3:60031800-60032400	Active TSS	Brain Substantia Nigra	brain
26	chr3:60031800-60032800	Weak transcription	Primary T cells from cord blood	blood
27	chr3:60031800-60033000	Enhancers	Primary T helper cells PMA-I stimulated	--

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