Variant report

Variant	rs59577696
Chromosome Location	chr3:105467033-105467034
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 61 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:50)

rs_ID	r²[population]
rs55857799	1.00[AMR][1000 genomes]
rs55949717	1.00[AMR][1000 genomes]
rs56004331	1.00[AMR][1000 genomes]
rs56072602	1.00[AMR][1000 genomes]
rs56249671	1.00[AMR][1000 genomes]
rs56256418	1.00[AMR][1000 genomes]
rs56696279	1.00[AMR][1000 genomes]
rs57184464	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58512451	1.00[AMR][1000 genomes]
rs58846261	1.00[AMR][1000 genomes]
rs58991769	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59294274	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59347770	1.00[AMR][1000 genomes]
rs59924993	1.00[AMR][1000 genomes]
rs61115724	1.00[AMR][1000 genomes]
rs61230240	1.00[AMR][1000 genomes]
rs61452551	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73854347	1.00[AMR][1000 genomes]
rs73854349	1.00[AMR][1000 genomes]
rs73854350	1.00[AMR][1000 genomes]
rs73854352	1.00[AMR][1000 genomes]
rs73854353	1.00[AMR][1000 genomes]
rs73854354	1.00[AMR][1000 genomes]
rs73854355	1.00[AMR][1000 genomes]
rs73854356	1.00[AMR][1000 genomes]
rs73854359	1.00[AMR][1000 genomes]
rs73854361	1.00[AMR][1000 genomes]
rs73854378	1.00[AMR][1000 genomes]
rs73854385	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73854389	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73854390	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73854392	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73854393	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73854395	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73854396	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73854397	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73854398	1.00[AFR][1000 genomes]
rs73854402	1.00[AMR][1000 genomes]
rs73854884	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73854886	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73854889	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73854892	1.00[AMR][1000 genomes]
rs73855350	1.00[AMR][1000 genomes]
rs73855352	1.00[AMR][1000 genomes]
rs73855362	1.00[AMR][1000 genomes]
rs73855363	1.00[AMR][1000 genomes]
rs73855365	1.00[AMR][1000 genomes]
rs73855366	1.00[AMR][1000 genomes]
rs73857223	1.00[AMR][1000 genomes]
rs73857224	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv877306	chr3:105372196-105495841	Weak transcription Strong transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
2	nsv591242	chr3:105373836-105470134	Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	nsv877308	chr3:105373836-105495841	Strong transcription Weak transcription ZNF genes & repeats Enhancers Genic enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	nsv877309	chr3:105373836-105542435	Weak transcription Strong transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	esv2755185	chr3:105378310-105597310	Strong transcription Weak transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
6	nsv877310	chr3:105409321-105495841	ZNF genes & repeats Flanking Active TSS Weak transcription Strong transcription Genic enhancers Enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
7	nsv591243	chr3:105438320-105470134	Strong transcription Enhancers Weak transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	Chromatin interactive region	n/a	inside rSNPs	diseases
8	nsv591244	chr3:105438320-105495841	ZNF genes & repeats Genic enhancers Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	Chromatin interactive region	n/a	inside rSNPs	diseases
9	nsv591245	chr3:105438806-105469882	Weak transcription Strong transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	Chromatin interactive region	n/a	inside rSNPs	diseases
10	nsv591246	chr3:105439522-105504129	ZNF genes & repeats Weak transcription Strong transcription Enhancers Genic enhancers Transcr. at gene 5' and 3' Flanking Active TSS Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
11	nsv877311	chr3:105449986-105493286	Enhancers Strong transcription Weak transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Transcr. at gene 5' and 3'	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:102 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:105389200-105467200	Weak transcription	Stomach Mucosa	stomach
2	chr3:105439000-105471200	Weak transcription	Fetal Thymus	thymus
3	chr3:105439000-105471400	Weak transcription	HUES6 Cell Line	embryonic stem cell
4	chr3:105439000-105471400	Weak transcription	HMEC	breast
5	chr3:105439000-105471600	Weak transcription	Fetal Brain Male	brain
6	chr3:105439000-105475800	Weak transcription	Esophagus	oesophagus
7	chr3:105439000-105477400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
8	chr3:105439000-105477400	Weak transcription	Lung	lung
9	chr3:105439000-105477400	Weak transcription	Skeletal Muscle Female	skeletal muscle
10	chr3:105439200-105477200	Weak transcription	Cortex derived primary cultured neurospheres	brain
11	chr3:105446600-105477600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
12	chr3:105452400-105477400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
13	chr3:105452800-105477400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
14	chr3:105458000-105475600	Weak transcription	Pancreas	Pancrea
15	chr3:105460200-105471600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
16	chr3:105462000-105470200	Weak transcription	Dnd41	blood
17	chr3:105463200-105471400	Enhancers	Primary T helper cells fromperipheralblood	blood
18	chr3:105463400-105470800	Weak transcription	Brain Inferior Temporal Lobe	brain
19	chr3:105464200-105471000	Enhancers	Primary T cells from cord blood	blood
20	chr3:105464200-105477400	Weak transcription	Fetal Muscle Trunk	muscle
21	chr3:105464200-105478200	Weak transcription	Right Atrium	heart
22	chr3:105464400-105477400	Weak transcription	Fetal Lung	lung
23	chr3:105464600-105467600	Enhancers	Brain Hippocampus Middle	brain
24	chr3:105464600-105471200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
25	chr3:105464600-105477400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
26	chr3:105464800-105469400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
27	chr3:105464800-105477400	Weak transcription	Liver	Liver
28	chr3:105464800-105477400	Weak transcription	Stomach Smooth Muscle	stomach
29	chr3:105464800-105482600	Weak transcription	Placenta Amnion	Placenta Amnion
30	chr3:105465000-105467800	Enhancers	Adipose Nuclei	Adipose
31	chr3:105465000-105471200	Weak transcription	HSMMtube	muscle
32	chr3:105465000-105472000	Weak transcription	HUVEC	blood vessel
33	chr3:105465200-105467400	Enhancers	HUES48 Cell Line	embryonic stem cell
34	chr3:105465200-105467800	Enhancers	iPS-18 Cell Line	embryonic stem cell
35	chr3:105465200-105469600	Weak transcription	Placenta	Placenta
36	chr3:105465200-105471200	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
37	chr3:105465400-105467600	Enhancers	Muscle Satellite Cultured Cells	--
38	chr3:105465400-105471200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
39	chr3:105465600-105467200	Weak transcription	Aorta	Aorta
40	chr3:105465600-105471200	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
41	chr3:105465600-105471400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
42	chr3:105465600-105478200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
43	chr3:105465800-105467200	Weak transcription	Primary T cells fromperipheralblood	blood
44	chr3:105465800-105467200	Weak transcription	Colonic Mucosa	Colon
45	chr3:105465800-105467200	Weak transcription	Ovary	ovary
46	chr3:105465800-105467200	Weak transcription	Psoas Muscle	Psoas
47	chr3:105465800-105467200	Weak transcription	Small Intestine	intestine
48	chr3:105465800-105467400	Weak transcription	Brain Substantia Nigra	brain
49	chr3:105465800-105467400	Weak transcription	Left Ventricle	heart
50	chr3:105465800-105467600	Weak transcription	Primary hematopoietic stem cells short term culture	blood

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