Variant report

Variant	rs6906953
Chromosome Location	chr6:28882098-28882099
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	chr6:28881898-28882170	HepG2	liver:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:28872472..28877177-chr6:28878410..28882542,6	MCF-7	breast:

Variant related genes	Relation type
RNU6-930P	TF binding region
ENSG00000204713	Chromatin interaction

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs1061625	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1794588	0.87[ASN][1000 genomes]
rs209127	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2097424	0.85[ASN][1000 genomes]
rs2894066	0.84[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs3131067	0.83[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs3131098	0.82[ASN][1000 genomes]
rs3132377	0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3132380	0.83[AFR][1000 genomes];0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs393309	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6912843	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7740125	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs876737	0.83[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs9257395	0.90[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs9257399	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9257412	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs9257416	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv883518	chr6:28792477-28911802	Active TSS Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	56 gene(s)	inside rSNPs	diseases
2	nsv883519	chr6:28792477-28936556	Transcr. at gene 5' and 3' Genic enhancers Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	57 gene(s)	inside rSNPs	diseases
3	nsv427748	chr6:28831888-28999434	Weak transcription Flanking Active TSS Enhancers Active TSS ZNF genes & repeats Strong transcription Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	62 gene(s)	inside rSNPs	diseases
4	nsv601212	chr6:28833225-28893927	Flanking Active TSS Weak transcription Enhancers Active TSS Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	47 gene(s)	inside rSNPs	diseases
5	nsv462667	chr6:28834646-28893927	Active TSS Transcr. at gene 5' and 3' Weak transcription Enhancers Bivalent/Poised TSS Genic enhancers Strong transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	47 gene(s)	inside rSNPs	diseases
6	nsv830622	chr6:28861667-29015804	Flanking Active TSS Active TSS Bivalent/Poised TSS Enhancers Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	59 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:28866000-28887000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr6:28867000-28889400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
3	chr6:28867600-28889200	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
4	chr6:28867600-28889400	Strong transcription	HUES48 Cell Line	embryonic stem cell
5	chr6:28867600-28889600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr6:28867800-28883200	Strong transcription	Muscle Satellite Cultured Cells	--
7	chr6:28867800-28885400	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
8	chr6:28867800-28888200	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
9	chr6:28867800-28888400	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
10	chr6:28867800-28888400	Strong transcription	Fetal Thymus	thymus
11	chr6:28867800-28889200	Strong transcription	iPS-20b Cell Line	embryonic stem cell
12	chr6:28867800-28889200	Strong transcription	HMEC	breast
13	chr6:28867800-28889400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
14	chr6:28867800-28889400	Strong transcription	HUES64 Cell Line	embryonic stem cell
15	chr6:28867800-28889600	Strong transcription	Fetal Lung	lung
16	chr6:28868000-28889200	Strong transcription	HUES6 Cell Line	embryonic stem cell
17	chr6:28868200-28887200	Strong transcription	HUVEC	blood vessel
18	chr6:28868200-28889600	Strong transcription	iPS-18 Cell Line	embryonic stem cell
19	chr6:28868200-28889800	Strong transcription	Primary hematopoietic stem cells short term culture	blood
20	chr6:28868400-28882600	Strong transcription	Liver	Liver
21	chr6:28868400-28884400	Strong transcription	Dnd41	blood
22	chr6:28868400-28886800	Strong transcription	Primary T cells fromperipheralblood	blood
23	chr6:28868400-28887200	Strong transcription	Primary T helper cells fromperipheralblood	blood
24	chr6:28868400-28888400	Strong transcription	Adipose Nuclei	Adipose
25	chr6:28868400-28888400	Strong transcription	Duodenum Mucosa	Duodenum
26	chr6:28868400-28888400	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
27	chr6:28868400-28888400	Strong transcription	Fetal Brain Female	brain
28	chr6:28868400-28888400	Strong transcription	Fetal Muscle Leg	muscle
29	chr6:28868400-28888600	Strong transcription	Fetal Muscle Trunk	muscle
30	chr6:28868400-28889000	Strong transcription	Sigmoid Colon	Sigmoid Colon
31	chr6:28868400-28889200	Strong transcription	Rectal Mucosa Donor 29	rectum
32	chr6:28868400-28889400	Strong transcription	H1 Cell Line	embryonic stem cell
33	chr6:28868400-28889400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
34	chr6:28868600-28887200	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
35	chr6:28868600-28887800	Strong transcription	Left Ventricle	heart
36	chr6:28868600-28888400	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
37	chr6:28868600-28888600	Strong transcription	Duodenum Smooth Muscle	Duodenum
38	chr6:28868600-28889400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
39	chr6:28868600-28889400	Strong transcription	Fetal Intestine Large	intestine
40	chr6:28868600-28889800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
41	chr6:28868800-28887200	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
42	chr6:28869000-28882200	Strong transcription	Brain Angular Gyrus	brain
43	chr6:28869000-28885400	Strong transcription	HepG2	liver
44	chr6:28869000-28888600	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
45	chr6:28869000-28889400	Strong transcription	Rectal Mucosa Donor 31	rectum
46	chr6:28869200-28886800	Strong transcription	Primary B cells from peripheral blood	blood
47	chr6:28869400-28884600	Strong transcription	Primary T helper cells PMA-I stimulated	--
48	chr6:28869600-28889200	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
49	chr6:28869600-28889600	Strong transcription	Fetal Stomach	stomach
50	chr6:28869800-28882800	Strong transcription	Primary T helper memory cells from peripheral blood 2	blood

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