Variant report

Variant	rs6796862
Chromosome Location	chr3:156883035-156883036
allele	C/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	chr3:156883024-156883080	MCF10A-Er-Src	breast:	n/a	n/a

Variant related genes	Relation type
KRT18P34	TF binding region
CCNL1	TF binding region

Extended variants
information (count: 49 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs10513505	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11914788	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11915720	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11917729	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16827306	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16827355	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16827378	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16827392	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2047646	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2049241	1.00[EUR][1000 genomes]
rs2321741	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35965122	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56810791	1.00[EUR][1000 genomes]
rs56844899	1.00[EUR][1000 genomes]
rs57897344	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57942815	1.00[EUR][1000 genomes]
rs58794040	1.00[AMR][1000 genomes]
rs59876369	1.00[EUR][1000 genomes]
rs60294797	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61173790	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6762249	1.00[EUR][1000 genomes]
rs6764944	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6770855	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6771465	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6772599	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6785398	1.00[EUR][1000 genomes]
rs6793336	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6798526	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6798588	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6798689	0.83[AMR][1000 genomes]
rs6810035	1.00[EUR][1000 genomes]
rs6810106	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73873607	1.00[AMR][1000 genomes]
rs73873609	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73873615	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73873616	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73873625	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73878005	0.83[AMR][1000 genomes]
rs7618940	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7619015	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7623711	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7625819	1.00[EUR][1000 genomes]
rs7630448	1.00[EUR][1000 genomes]
rs7635880	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7645454	1.00[EUR][1000 genomes]
rs7649998	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9756073	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv829766	chr3:156811536-157020551	Enhancers Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	144 gene(s)	inside rSNPs	diseases
2	nsv520331	chr3:156858300-156915650	Flanking Active TSS Active TSS Genic enhancers Strong transcription Enhancers Weak transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	139 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:34 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:156879000-156883200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr3:156879000-156885600	Weak transcription	Psoas Muscle	Psoas
3	chr3:156879000-156891800	Weak transcription	H9 Cell Line	embryonic stem cell
4	chr3:156879000-156892000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
5	chr3:156879200-156884200	Weak transcription	Pancreatic Islets	Pancreatic Islet
6	chr3:156879200-156884400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chr3:156879200-156884400	Weak transcription	Fetal Kidney	kidney
8	chr3:156879200-156891800	Weak transcription	Brain Inferior Temporal Lobe	brain
9	chr3:156879200-156891800	Weak transcription	Fetal Stomach	stomach
10	chr3:156879200-156891800	Weak transcription	Fetal Thymus	thymus
11	chr3:156879200-156892000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
12	chr3:156879400-156891200	Weak transcription	Fetal Muscle Leg	muscle
13	chr3:156879800-156884000	Weak transcription	Skeletal Muscle Female	skeletal muscle
14	chr3:156879800-156884400	Weak transcription	Duodenum Mucosa	Duodenum
15	chr3:156879800-156891800	Weak transcription	Primary T cells fromperipheralblood	blood
16	chr3:156880000-156888800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
17	chr3:156880000-156891400	Weak transcription	Placenta	Placenta
18	chr3:156880000-156891400	Weak transcription	GM12878-XiMat	blood
19	chr3:156880200-156884000	Weak transcription	Fetal Intestine Large	intestine
20	chr3:156880200-156888400	Weak transcription	Primary B cells from cord blood	blood
21	chr3:156880200-156891600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
22	chr3:156880200-156891800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
23	chr3:156880400-156891600	Weak transcription	Primary T helper cells PMA-I stimulated	--
24	chr3:156880600-156884400	Weak transcription	Skeletal Muscle Male	skeletal muscle
25	chr3:156881000-156883600	Weak transcription	Liver	Liver
26	chr3:156881000-156891600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
27	chr3:156881200-156892200	Weak transcription	Small Intestine	intestine
28	chr3:156881800-156888400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
29	chr3:156881800-156892000	Weak transcription	Lung	lung
30	chr3:156882200-156883800	Weak transcription	Rectal Mucosa Donor 31	rectum
31	chr3:156882200-156883800	Weak transcription	HepG2	liver
32	chr3:156882200-156884000	Weak transcription	Fetal Intestine Small	intestine
33	chr3:156882800-156884800	Weak transcription	Rectal Mucosa Donor 29	rectum
34	chr3:156883000-156885800	Weak transcription	Sigmoid Colon	Sigmoid Colon

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