Variant report

Variant	rs2747684
Chromosome Location	chr6:24878218-24878219
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	FOSL2	chr6:24878049-24878316	HepG2	liver:	n/a	n/a
2	BACH1	chr6:24876845-24878312	H1-hESC	embryonic stem cell:	n/a	n/a
3	JUND	chr6:24878147-24878282	H1-hESC	embryonic stem cell:	n/a	n/a
4	USF1	chr6:24878120-24878264	HepG2	liver:	n/a	chr6:24878179-24878190
5	USF1	chr6:24878097-24878304	H1-hESC	embryonic stem cell:	n/a	chr6:24878179-24878190
6	USF2	chr6:24878196-24878280	Hela-S3	cervix:	n/a	chr6:24878235-24878246

Variant related genes	Relation type
FAM65B	TF binding region

Extended variants
information (count: 10 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs1007237	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2747685	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2817715	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2817716	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2817719	0.95[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs926850	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes];0.95[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	nsv830609	chr6:24712086-24896647	Weak transcription Enhancers Strong transcription Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	68 gene(s)	inside rSNPs	diseases
2	nsv1022966	chr6:24763776-25154212	Flanking Active TSS Weak transcription Active TSS Enhancers Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
3	nsv538160	chr6:24763776-25154212	Active TSS Strong transcription Flanking Active TSS Enhancers Bivalent Enhancer Weak transcription Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
4	nsv1019504	chr6:24869174-24994758	Bivalent Enhancer Weak transcription Transcr. at gene 5' and 3' Genic enhancers Enhancers Flanking Active TSS Bivalent/Poised TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:24843800-24879400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr6:24855200-24895000	Genic enhancers	Primary T helper cells fromperipheralblood	blood
3	chr6:24856200-24882400	Weak transcription	NHLF	lung
4	chr6:24859400-24886800	Weak transcription	Sigmoid Colon	Sigmoid Colon
5	chr6:24862800-24885600	Genic enhancers	Primary T helper naive cells fromperipheralblood	blood
6	chr6:24862800-24887400	Genic enhancers	Primary T helper cells PMA-I stimulated	--
7	chr6:24865600-24879600	Weak transcription	Brain Germinal Matrix	brain
8	chr6:24870400-24883800	Genic enhancers	Primary T helper naive cells from peripheral blood	blood
9	chr6:24871800-24886800	Weak transcription	Brain Cingulate Gyrus	brain
10	chr6:24874800-24883200	Weak transcription	Brain Anterior Caudate	brain
11	chr6:24874800-24883600	Weak transcription	Skeletal Muscle Female	skeletal muscle
12	chr6:24875400-24882000	Weak transcription	NHDF-Ad	bronchial
13	chr6:24875600-24886800	Weak transcription	Fetal Heart	heart
14	chr6:24875800-24887800	Genic enhancers	Primary Natural Killer cells fromperipheralblood	blood
15	chr6:24876000-24901800	Weak transcription	Spleen	Spleen
16	chr6:24876200-24882600	Weak transcription	HSMMtube	muscle
17	chr6:24876600-24880800	Genic enhancers	Primary T helper memory cells from peripheral blood 2	blood
18	chr6:24876800-24880600	Genic enhancers	Primary T killer naive cells fromperipheralblood	blood
19	chr6:24877000-24878400	ZNF genes & repeats	IMR90 fetal lung fibroblasts Cell Line	lung
20	chr6:24877000-24878400	ZNF genes & repeats	Primary hematopoietic stem cells short term culture	blood
21	chr6:24877000-24878400	Genic enhancers	Monocytes-CD14+_RO01746	blood
22	chr6:24877000-24879000	ZNF genes & repeats	Primary hematopoietic stem cells	blood
23	chr6:24877000-24879400	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
24	chr6:24877000-24883000	Genic enhancers	Primary T helper 17 cells PMA-I stimulated	--
25	chr6:24877000-24888000	Genic enhancers	Primary T cells from cord blood	blood
26	chr6:24877200-24878400	Genic enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
27	chr6:24877200-24878400	ZNF genes & repeats	Fetal Thymus	thymus
28	chr6:24877200-24878400	ZNF genes & repeats	Thymus	Thymus
29	chr6:24877200-24878600	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
30	chr6:24877200-24878800	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
31	chr6:24877200-24879200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
32	chr6:24877200-24879800	ZNF genes & repeats	GM12878-XiMat	blood
33	chr6:24877200-24880400	Genic enhancers	Primary B cells from peripheral blood	blood
34	chr6:24877400-24878600	ZNF genes & repeats	Primary monocytes fromperipheralblood	blood
35	chr6:24877400-24879400	Weak transcription	Placenta Amnion	Placenta Amnion
36	chr6:24877400-24879600	Weak transcription	HUES64 Cell Line	embryonic stem cell
37	chr6:24877400-24879800	Weak transcription	H9 Cell Line	embryonic stem cell
38	chr6:24877400-24883400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
39	chr6:24877400-24888000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
40	chr6:24877600-24878600	Enhancers	H1 Cell Line	embryonic stem cell
41	chr6:24877600-24878600	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
42	chr6:24877600-24880000	Enhancers	iPS-20b Cell Line	embryonic stem cell
43	chr6:24877600-24880200	Genic enhancers	Primary T helper memory cells from peripheral blood 1	blood
44	chr6:24877600-24881400	Weak transcription	Psoas Muscle	Psoas
45	chr6:24877800-24878400	Enhancers	iPS-18 Cell Line	embryonic stem cell
46	chr6:24877800-24882000	Strong transcription	Primary B cells from cord blood	blood
47	chr6:24878000-24878400	ZNF genes & repeats	Primary mononuclear cells fromperipheralblood	Blood
48	chr6:24878000-24878800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
49	chr6:24878000-24879600	Weak transcription	HUES48 Cell Line	embryonic stem cell
50	chr6:24878000-24879600	Weak transcription	iPS-15b Cell Line	embryonic stem cell

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