Variant report

Variant	rs9855731
Chromosome Location	chr3:69077197-69077198
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	chr3:69077190-69077511	K562	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:69071277..69075942-chr3:69076171..69080932,5	MCF-7	breast:

Variant related genes	Relation type
TMF1	TF binding region
ENSG00000144747	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs12630479	0.93[ASN][1000 genomes]
rs12632068	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs12632476	0.97[ASN][1000 genomes]
rs1866263	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35171227	0.90[EUR][1000 genomes]
rs7631719	1.00[ASW][hapmap];0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];0.92[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];0.89[TSI][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.95[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9812253	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];0.87[LWK][hapmap];1.00[MEX][hapmap];0.81[MKK][hapmap];0.96[TSI][hapmap];0.86[YRI][hapmap];0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9851078	0.84[CEU][hapmap];0.82[GIH][hapmap];0.89[TSI][hapmap]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv876933	chr3:69059023-69227379	Enhancers Strong transcription Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	15 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:69063400-69078200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr3:69063400-69078400	Weak transcription	Esophagus	oesophagus
3	chr3:69063400-69078600	Weak transcription	Pancreas	Pancrea
4	chr3:69063400-69078600	Weak transcription	Spleen	Spleen
5	chr3:69063400-69081800	Weak transcription	Gastric	stomach
6	chr3:69063400-69100200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
7	chr3:69063600-69080800	Weak transcription	H9 Cell Line	embryonic stem cell
8	chr3:69063600-69081200	Weak transcription	Small Intestine	intestine
9	chr3:69063800-69078800	Weak transcription	Stomach Mucosa	stomach
10	chr3:69064000-69081800	Weak transcription	Pancreatic Islets	Pancreatic Islet
11	chr3:69064000-69098600	Weak transcription	Hela-S3	cervix
12	chr3:69064200-69078800	Weak transcription	Right Ventricle	heart
13	chr3:69064200-69082000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
14	chr3:69064800-69077200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
15	chr3:69065000-69079000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
16	chr3:69065000-69081400	Weak transcription	Aorta	Aorta
17	chr3:69065200-69081000	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
18	chr3:69065400-69080800	Strong transcription	Osteobl	bone
19	chr3:69065600-69080600	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
20	chr3:69065800-69082000	Strong transcription	Monocytes-CD14+_RO01746	blood
21	chr3:69066000-69086400	Strong transcription	HSMM	muscle
22	chr3:69066000-69095800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
23	chr3:69066000-69096400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
24	chr3:69066400-69096800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
25	chr3:69066600-69078800	Weak transcription	A549	lung
26	chr3:69066600-69099000	Strong transcription	Placenta	Placenta
27	chr3:69067400-69098200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
28	chr3:69067600-69090800	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
29	chr3:69069200-69099000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
30	chr3:69069400-69081200	Strong transcription	NH-A	brain
31	chr3:69069400-69097800	Strong transcription	Primary neutrophils fromperipheralblood	blood
32	chr3:69070000-69082400	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
33	chr3:69070200-69078000	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
34	chr3:69070200-69081400	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
35	chr3:69070200-69096400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
36	chr3:69070400-69082000	Strong transcription	Primary monocytes fromperipheralblood	blood
37	chr3:69070400-69098000	Strong transcription	Rectal Mucosa Donor 31	rectum
38	chr3:69070400-69098400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
39	chr3:69070600-69089600	Strong transcription	Primary T helper cells PMA-I stimulated	--
40	chr3:69070600-69095800	Strong transcription	Primary T helper cells fromperipheralblood	blood
41	chr3:69070600-69097800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
42	chr3:69071000-69090200	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
43	chr3:69071000-69098400	Strong transcription	HUES48 Cell Line	embryonic stem cell
44	chr3:69071000-69098600	Strong transcription	Rectal Mucosa Donor 29	rectum
45	chr3:69071200-69098200	Strong transcription	HUES64 Cell Line	embryonic stem cell
46	chr3:69072000-69080000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
47	chr3:69072200-69083000	Strong transcription	Brain Anterior Caudate	brain
48	chr3:69072200-69090000	Strong transcription	Duodenum Smooth Muscle	Duodenum
49	chr3:69072200-69096200	Strong transcription	Liver	Liver
50	chr3:69072200-69098200	Strong transcription	HUES6 Cell Line	embryonic stem cell

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