Variant report

Variant	rs13084180
Chromosome Location	chr3:69095112-69095113
allele	A/T
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	TCF3	chr3:69095038-69095197	GM12878	blood:	n/a	n/a
2	MYC	chr3:69095100-69095208	MCF-7	breast:	n/a	n/a
3	BCL3	chr3:69094959-69095336	GM12878	blood:	n/a	n/a
4	PBX3	chr3:69095079-69095286	GM12878	blood:	n/a	n/a
5	TCF3	chr3:69095011-69095261	GM12878	blood:	n/a	n/a
6	POLR2A	chr3:69095040-69095239	MCF-7	breast:	n/a	n/a
7	BCL3	chr3:69094940-69095328	GM12878	blood:	n/a	n/a
8	POLR2A	chr3:69095022-69095272	GM12878	blood:	n/a	n/a
9	POLR2A	chr3:69095066-69095186	MCF-7	breast:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr3:69093813..69096994-chr3:69097995..69101558,3	MCF-7	breast:
2	chr3:69087675..69090220-chr3:69093869..69096184,2	K562	blood:
3	chr3:69087508..69089577-chr3:69093869..69097374,4	K562	blood:

Variant related genes	Relation type
TMF1	TF binding region
ENSG00000265355	Chromatin interaction
ENSG00000144747	Chromatin interaction

Extended variants
information (count: 12 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs13072064	0.82[EUR][1000 genomes]
rs1532918	1.00[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs2271118	0.85[EUR][1000 genomes]
rs2271120	0.83[EUR][1000 genomes]
rs2279936	0.85[EUR][1000 genomes]
rs2292199	0.83[EUR][1000 genomes]
rs34715902	0.82[EUR][1000 genomes]
rs35132360	0.83[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs35420812	0.88[EUR][1000 genomes]
rs6807701	0.80[EUR][1000 genomes]
rs7433622	0.83[EUR][1000 genomes]

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	chr3:69063400-69100200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr3:69064000-69098600	Weak transcription	Hela-S3	cervix
3	chr3:69066000-69095800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
4	chr3:69066000-69096400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
5	chr3:69066400-69096800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
6	chr3:69066600-69099000	Strong transcription	Placenta	Placenta
7	chr3:69067400-69098200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
8	chr3:69069200-69099000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr3:69069400-69097800	Strong transcription	Primary neutrophils fromperipheralblood	blood
10	chr3:69070200-69096400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
11	chr3:69070400-69098000	Strong transcription	Rectal Mucosa Donor 31	rectum
12	chr3:69070400-69098400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
13	chr3:69070600-69095800	Strong transcription	Primary T helper cells fromperipheralblood	blood
14	chr3:69070600-69097800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
15	chr3:69071000-69098400	Strong transcription	HUES48 Cell Line	embryonic stem cell
16	chr3:69071000-69098600	Strong transcription	Rectal Mucosa Donor 29	rectum
17	chr3:69071200-69098200	Strong transcription	HUES64 Cell Line	embryonic stem cell
18	chr3:69072200-69096200	Strong transcription	Liver	Liver
19	chr3:69072200-69098200	Strong transcription	HUES6 Cell Line	embryonic stem cell
20	chr3:69072400-69096400	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
21	chr3:69072400-69097200	Strong transcription	Primary B cells from peripheral blood	blood
22	chr3:69072400-69098000	Strong transcription	Primary hematopoietic stem cells short term culture	blood
23	chr3:69072600-69097400	Strong transcription	Skeletal Muscle Female	skeletal muscle
24	chr3:69072600-69097800	Strong transcription	Primary T cells fromperipheralblood	blood
25	chr3:69072600-69098600	Strong transcription	Fetal Intestine Large	intestine
26	chr3:69072800-69097200	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
27	chr3:69073600-69096400	Strong transcription	Duodenum Mucosa	Duodenum
28	chr3:69073600-69099200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
29	chr3:69074400-69097600	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
30	chr3:69074600-69100200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
31	chr3:69075000-69096800	Weak transcription	Fetal Heart	heart
32	chr3:69076200-69096400	Strong transcription	Dnd41	blood
33	chr3:69077400-69096400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
34	chr3:69079000-69098200	Strong transcription	NHDF-Ad	bronchial
35	chr3:69079000-69100000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
36	chr3:69079400-69100000	Weak transcription	Stomach Mucosa	stomach
37	chr3:69079600-69096600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
38	chr3:69080800-69100200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
39	chr3:69081800-69095800	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
40	chr3:69082200-69096400	Weak transcription	Psoas Muscle	Psoas
41	chr3:69082200-69098000	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
42	chr3:69083200-69095800	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
43	chr3:69083200-69096600	Weak transcription	Spleen	Spleen
44	chr3:69083400-69096400	Weak transcription	H9 Cell Line	embryonic stem cell
45	chr3:69083400-69096400	Weak transcription	Gastric	stomach
46	chr3:69083400-69096400	Strong transcription	Osteobl	bone
47	chr3:69083400-69098200	Strong transcription	Monocytes-CD14+_RO01746	blood
48	chr3:69083400-69098600	Strong transcription	Primary monocytes fromperipheralblood	blood
49	chr3:69083800-69095600	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
50	chr3:69083800-69098600	Strong transcription	NH-A	brain

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