Variant report

Variant	rs16897791
Chromosome Location	chr6:30644359-30644360
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:11)
CpG islands
(count:0)
Chromatin interactive
region (count:9)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:11 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr6:30644215-30644434	HUVEC	blood vessel:	n/a	n/a
2	POLR2A	chr6:30643532-30644606	K562	blood:	n/a	n/a
3	POLR2A	chr6:30643573-30644447	GM12891	blood:	n/a	n/a
4	POLR2A	chr6:30643367-30645364	PFSK-1	brain:	n/a	n/a
5	POLR2A	chr6:30643778-30644886	K562	blood:	n/a	n/a
6	CTCF	chr6:30644280-30644430	AG10803	skin:	n/a	n/a
7	POLR2A	chr6:30644271-30644800	HUVEC	blood vessel:	n/a	n/a
8	POLR2A	chr6:30643440-30645279	GM12878	blood:	n/a	n/a
9	CTCF	chr6:30644220-30644370	HCFaa	heart:	n/a	n/a
10	POLR2A	chr6:30644266-30644801	K562	blood:	n/a	n/a
11	POLR2A	chr6:30644329-30644417	GM12878	blood:	n/a	n/a

No data

(count:9 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:30643140..30646430-chr6:30646778..30649546,3	MCF-7	breast:
2	chr6:30642982..30645092-chr6:30648552..30650727,2	MCF-7	breast:
3	chr6:30643326..30660432-chr6:30681522..30696111,127	MCF-7	breast:
4	chr6:30634661..30668428-chr6:30680318..30698953,145	MCF-7	breast:
5	chr6:30639491..30642399-chr6:30642819..30647161,4	MCF-7	breast:
6	chr6:30642470..30648471-chr6:30697241..30700740,8	MCF-7	breast:
7	chr6:30577127..30589352-chr6:30620628..30648657,88	K562	blood:
8	chr6:30643814..30650234-chr6:30705979..30710789,12	MCF-7	breast:
9	chr6:30582956..30585804-chr6:30643199..30647453,3	MCF-7	breast:

No data

Variant related genes	Relation type
DHX16	TF binding region
ENSG00000222894	Chromatin interaction
ENSG00000272540	Chromatin interaction
ENSG00000204569	Chromatin interaction
ENSG00000137337	Chromatin interaction
ENSG00000204560	Chromatin interaction
ENSG00000272273	Chromatin interaction
ENSG00000204568	Chromatin interaction
ENSG00000137312	Chromatin interaction
ENSG00000196230	Chromatin interaction

Extended variants
information (count: 64 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:57)

rs_ID	r²[population]
rs1079687	0.94[ASN][1000 genomes]
rs1109146	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16867852	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16897781	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2075015	0.91[AFR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2239886	0.88[ASN][1000 genomes]
rs2269702	0.91[AFR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2269707	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2284172	0.82[EUR][1000 genomes]
rs2285321	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2394392	0.94[ASN][1000 genomes]
rs25497	0.82[EUR][1000 genomes]
rs28986465	0.91[AFR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3094090	0.86[ASN][1000 genomes]
rs3132595	0.94[ASN][1000 genomes]
rs3132608	0.94[ASN][1000 genomes]
rs55810373	0.82[EUR][1000 genomes]
rs59378621	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs61486053	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61733213	0.88[AFR][1000 genomes]
rs6900113	0.83[AFR][1000 genomes]
rs6924270	0.88[ASN][1000 genomes]
rs6929626	0.88[ASN][1000 genomes]
rs6929698	0.91[AFR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6931293	0.88[AFR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6937357	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7762626	0.91[AFR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7773711	0.89[AFR][1000 genomes]
rs9295901	0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9295902	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9295904	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9295905	0.91[AFR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9295908	0.91[AFR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9295909	0.91[AFR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9461620	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9461622	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9461623	0.91[AFR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9461624	0.88[AFR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9461625	0.82[EUR][1000 genomes]
rs9468803	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9468805	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9468807	0.90[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs9468811	0.88[AFR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9468812	0.88[AFR][1000 genomes]
rs9468813	0.91[AFR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9468814	0.88[ASN][1000 genomes]
rs9468816	0.82[EUR][1000 genomes]
rs9468817	0.82[EUR][1000 genomes]
rs9500863	0.82[EUR][1000 genomes]
rs9500866	0.82[EUR][1000 genomes]
rs9500867	0.82[EUR][1000 genomes]
rs9501027	0.82[EUR][1000 genomes]
rs9501338	0.91[AFR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9501481	0.88[ASN][1000 genomes]
rs9501482	0.88[ASN][1000 genomes]
rs9501483	0.91[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs9501484	0.83[AFR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3519970	chr6:30382942-31378788	Genic enhancers Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Enhancers Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	1030 gene(s)	inside rSNPs	diseases
2	esv3519971	chr6:30382942-31378788	Bivalent Enhancer Flanking Active TSS Active TSS Weak transcription Enhancers Transcr. at gene 5' and 3' Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	1030 gene(s)	inside rSNPs	diseases
3	nsv601481	chr6:30422632-31284253	Weak transcription Genic enhancers Transcr. at gene 5' and 3' Flanking Active TSS Strong transcription Enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	1012 gene(s)	inside rSNPs	diseases
4	esv3430377	chr6:30443802-30814426	Active TSS Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	967 gene(s)	inside rSNPs	diseases
5	nsv884086	chr6:30462084-30672757	Enhancers Weak transcription Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Strong transcription Bivalent/Poised TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	798 gene(s)	inside rSNPs	diseases
6	nsv830626	chr6:30558064-30732905	Weak transcription Enhancers Active TSS Genic enhancers Strong transcription Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	406 gene(s)	inside rSNPs	diseases
7	nsv884094	chr6:30637998-30660611	Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Weak transcription Strong transcription Enhancers Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	32 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:30640800-30644400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
2	chr6:30640800-30644400	Weak transcription	Aorta	Aorta
3	chr6:30640800-30644400	Weak transcription	Gastric	stomach
4	chr6:30640800-30647000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
5	chr6:30640800-30649600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
6	chr6:30641000-30644400	Weak transcription	H1 Cell Line	embryonic stem cell
7	chr6:30641000-30644400	Weak transcription	H9 Cell Line	embryonic stem cell
8	chr6:30641000-30644400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
9	chr6:30641000-30647000	Weak transcription	Stomach Mucosa	stomach
10	chr6:30641000-30647600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
11	chr6:30641000-30650000	Weak transcription	Psoas Muscle	Psoas
12	chr6:30641200-30644400	Weak transcription	Brain Angular Gyrus	brain
13	chr6:30641200-30644400	Weak transcription	Brain Substantia Nigra	brain
14	chr6:30641200-30644600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
15	chr6:30641200-30645000	Weak transcription	Fetal Kidney	kidney
16	chr6:30641200-30646800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
17	chr6:30641200-30647000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
18	chr6:30641400-30646600	Weak transcription	Fetal Brain Male	brain
19	chr6:30641800-30646800	Weak transcription	HepG2	liver
20	chr6:30643600-30644600	Strong transcription	Primary B cells from peripheral blood	blood
21	chr6:30643600-30644600	Strong transcription	Duodenum Mucosa	Duodenum
22	chr6:30643600-30644800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
23	chr6:30643600-30645000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
24	chr6:30643600-30645200	Strong transcription	Primary hematopoietic stem cells	blood
25	chr6:30643600-30645200	Strong transcription	Primary T helper cells fromperipheralblood	blood
26	chr6:30643600-30645400	Strong transcription	Foreskin Melanocyte Primary Cells skin01	Skin
27	chr6:30643600-30645600	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
28	chr6:30643600-30645800	Strong transcription	Primary T cells fromperipheralblood	blood
29	chr6:30643600-30646000	Strong transcription	Primary T helper naive cells from peripheral blood	blood
30	chr6:30643600-30646000	Strong transcription	Primary T killer naive cells fromperipheralblood	blood
31	chr6:30643600-30646000	Strong transcription	HUVEC	blood vessel
32	chr6:30643600-30646200	Strong transcription	Placenta Amnion	Placenta Amnion
33	chr6:30643600-30646400	Strong transcription	Primary neutrophils fromperipheralblood	blood
34	chr6:30643600-30646400	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
35	chr6:30643600-30646400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
36	chr6:30643600-30646600	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
37	chr6:30643600-30646600	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
38	chr6:30643600-30646600	Strong transcription	Primary monocytes fromperipheralblood	blood
39	chr6:30643600-30646600	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
40	chr6:30643600-30646600	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
41	chr6:30643600-30646600	Strong transcription	Duodenum Smooth Muscle	Duodenum
42	chr6:30643600-30646600	Strong transcription	Fetal Thymus	thymus
43	chr6:30643600-30646600	Strong transcription	Stomach Smooth Muscle	stomach
44	chr6:30643600-30646600	Strong transcription	HSMM	muscle
45	chr6:30643600-30646600	Strong transcription	Monocytes-CD14+_RO01746	blood
46	chr6:30643600-30646600	Strong transcription	NHEK	skin
47	chr6:30643600-30646600	Strong transcription	NHLF	lung
48	chr6:30643600-30646600	Strong transcription	Osteobl	bone
49	chr6:30643600-30646800	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
50	chr6:30643600-30646800	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin

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