Variant report

Variant	rs16879071
Chromosome Location	chr6:16756944-16756945
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	POLR2A	chr6:16756701-16760622	HepG2	liver:	n/a	n/a
2	STAT3	chr6:16756921-16757385	MCF10A-Er-Src	breast:	n/a	n/a
3	GATA3	chr6:16756750-16757243	SH-SY5Y	brain:	n/a	n/a
4	POLR2A	chr6:16756041-16757462	PFSK-1	brain:	n/a	n/a
5	POLR2A	chr6:16756434-16758301	MCF10A-Er-Src	breast:	n/a	n/a
6	POLR2A	chr6:16755995-16757081	PFSK-1	brain:	n/a	n/a
7	CUX1	chr6:16756788-16757015	K562	blood:	n/a	n/a
8	POLR2A	chr6:16756699-16762336	K562	blood:	n/a	n/a
9	STAT3	chr6:16756873-16757414	MCF10A-Er-Src	breast:	n/a	n/a
10	TCF7L2	chr6:16756655-16758309	HEK293	kidney:	n/a	n/a
11	FOS	chr6:16756937-16757402	MCF10A-Er-Src	breast:	n/a	n/a
12	CEBPB	chr6:16756901-16757724	Hela-S3	cervix:	n/a	chr6:16757072-16757085 chr6:16757620-16757633 chr6:16757653-16757662 chr6:16757652-16757663 chr6:16757620-16757631
13	STAT3	chr6:16756896-16757458	MCF10A-Er-Src	breast:	n/a	n/a
14	FOS	chr6:16756941-16757507	MCF10A-Er-Src	breast:	n/a	n/a
15	STAT3	chr6:16756683-16757478	MCF10A-Er-Src	breast:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr16:85608800..85610895-chr6:16755829..16757865,2	K562	blood:
2	chr16:85608097..85610895-chr6:16755797..16757329,2	K562	blood:
3	chr6:16756359..16757313-chr6:16766214..16766739,2	MCF-7	breast:
4	chr6:16509920..16511520-chr6:16755808..16757331,2	MCF-7	breast:
5	chr14:81686384..81688841-chr6:16756880..16759563,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000229931	TF binding region
ATXN1	TF binding region
ENSG00000165417	Chromatin interaction

Extended variants
information (count: 9 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs12194640	1.00[YRI][hapmap]
rs12660376	1.00[CEU][hapmap]
rs12664358	1.00[CEU][hapmap]
rs72827833	0.85[EUR][1000 genomes]
rs72827835	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];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	nsv532022	chr6:16448152-16825567	ZNF genes & repeats Weak transcription Genic enhancers Enhancers Flanking Active TSS Strong transcription Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
2	nsv1031423	chr6:16467215-16823725	Active TSS Enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
3	nsv1015992	chr6:16469059-16846847	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
4	nsv538148	chr6:16469059-16846847	Weak transcription Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:116 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:16737600-16759400	Weak transcription	Thymus	Thymus
2	chr6:16741200-16758200	Enhancers	Fetal Heart	heart
3	chr6:16743000-16757200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
4	chr6:16743000-16759600	Weak transcription	Spleen	Spleen
5	chr6:16743800-16757200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
6	chr6:16745000-16759600	Weak transcription	Placenta	Placenta
7	chr6:16746200-16758400	Weak transcription	H1 Cell Line	embryonic stem cell
8	chr6:16746400-16758600	Weak transcription	Primary T cells from cord blood	blood
9	chr6:16746400-16758800	Weak transcription	Fetal Thymus	thymus
10	chr6:16746800-16758600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
11	chr6:16748200-16757200	Weak transcription	Fetal Brain Male	brain
12	chr6:16748200-16758200	Weak transcription	Brain Germinal Matrix	brain
13	chr6:16748200-16758400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
14	chr6:16748400-16758000	Weak transcription	Fetal Brain Female	brain
15	chr6:16748800-16758400	Weak transcription	Gastric	stomach
16	chr6:16748800-16758600	Weak transcription	Right Atrium	heart
17	chr6:16748800-16758800	Weak transcription	Ovary	ovary
18	chr6:16748800-16759000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
19	chr6:16748800-16759800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
20	chr6:16749200-16758400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
21	chr6:16750200-16758600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
22	chr6:16750400-16758600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
23	chr6:16750400-16758800	Weak transcription	Esophagus	oesophagus
24	chr6:16750400-16759800	Weak transcription	Lung	lung
25	chr6:16750600-16759000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
26	chr6:16751800-16757200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
27	chr6:16752200-16758600	Enhancers	Colon Smooth Muscle	Colon
28	chr6:16752400-16758600	Enhancers	Skeletal Muscle Male	skeletal muscle
29	chr6:16752800-16758400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
30	chr6:16752800-16758800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
31	chr6:16752800-16758800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
32	chr6:16753200-16757600	Weak transcription	HUES64 Cell Line	embryonic stem cell
33	chr6:16753200-16758400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
34	chr6:16753200-16758600	Weak transcription	Pancreas	Pancrea
35	chr6:16753400-16757400	Enhancers	A549	lung
36	chr6:16753400-16758200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
37	chr6:16753400-16758400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
38	chr6:16753400-16758600	Weak transcription	Placenta Amnion	Placenta Amnion
39	chr6:16753600-16757200	Weak transcription	Primary hematopoietic stem cells	blood
40	chr6:16753600-16757400	Weak transcription	HUES6 Cell Line	embryonic stem cell
41	chr6:16753600-16757600	Weak transcription	Adipose Nuclei	Adipose
42	chr6:16753600-16758200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
43	chr6:16753600-16758400	Enhancers	Primary neutrophils fromperipheralblood	blood
44	chr6:16753600-16758400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
45	chr6:16753600-16758400	Weak transcription	Fetal Muscle Leg	muscle
46	chr6:16753600-16758400	Weak transcription	NHLF	lung
47	chr6:16753600-16758600	Weak transcription	Left Ventricle	heart
48	chr6:16753600-16758800	Weak transcription	Muscle Satellite Cultured Cells	--
49	chr6:16753600-16758800	Enhancers	Fetal Intestine Small	intestine
50	chr6:16753600-16759200	Weak transcription	Fetal Muscle Trunk	muscle

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