Variant report

Variant	rs1106299
Chromosome Location	chr3:156174617-156174618
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	SP1	chr3:156174487-156175246	H1-hESC	embryonic stem cell:	n/a	n/a
2	JUND	chr3:156174536-156175142	H1-hESC	embryonic stem cell:	n/a	chr3:156174684-156174692 chr3:156174681-156174689 chr3:156174595-156174603
3	YY1	chr3:156174555-156174881	NT2-D1	testis:	n/a	n/a
4	SP1	chr3:156174569-156175227	H1-hESC	embryonic stem cell:	n/a	n/a
5	HA-E2F1	chr3:156174463-156175069	MCF-7	breast:	n/a	n/a
6	JUND	chr3:156174514-156174857	K562	blood:	n/a	chr3:156174684-156174692 chr3:156174681-156174689 chr3:156174595-156174603
7	FOSL2	chr3:156174493-156174823	HepG2	liver:	n/a	chr3:156174684-156174692 chr3:156174681-156174689 chr3:156174595-156174603
8	MAX	chr3:156174463-156175000	H1-hESC	embryonic stem cell:	n/a	n/a
9	POLR2A	chr3:156174425-156175025	U87	brain:	n/a	n/a
10	BHLHE40	chr3:156174571-156174722	K562	blood:	n/a	n/a
11	POLR2A	chr3:156174503-156174928	H1-hESC	embryonic stem cell:	n/a	n/a
12	MAX	chr3:156174545-156175098	H1-hESC	embryonic stem cell:	n/a	n/a
13	YY1	chr3:156174561-156175070	ECC-1	luminal epithelium:	n/a	n/a
14	FOSL2	chr3:156174398-156174988	MCF-7	breast:	n/a	chr3:156174684-156174692 chr3:156174681-156174689 chr3:156174595-156174603
15	MAX	chr3:156174432-156175121	MCF-7	breast:	n/a	n/a
16	YY1	chr3:156174512-156175152	H1-hESC	embryonic stem cell:	n/a	n/a
17	ATF2	chr3:156174598-156175074	H1-hESC	embryonic stem cell:	n/a	n/a
18	YY1	chr3:156174500-156174850	HepG2	liver:	n/a	n/a
19	POLR2A	chr3:156174570-156174798	H1-hESC	embryonic stem cell:	n/a	n/a
20	TBP	chr3:156174578-156175163	H1-hESC	embryonic stem cell:	n/a	n/a
21	YY1	chr3:156174565-156174824	HCT-116	colon:	n/a	n/a
22	CHD2	chr3:156174574-156175127	H1-hESC	embryonic stem cell:	n/a	n/a
23	MAFK	chr3:156174588-156175057	H1-hESC	embryonic stem cell:	n/a	chr3:156174682-156174692
24	MAX	chr3:156174526-156174875	K562	blood:	n/a	n/a
25	TAF1	chr3:156174483-156174914	H1-hESC	embryonic stem cell:	n/a	n/a
26	BACH1	chr3:156174566-156175038	H1-hESC	embryonic stem cell:	n/a	n/a
27	NR2F2	chr3:156174498-156175209	MCF-7	breast:	n/a	n/a
28	YY1	chr3:156174580-156174871	K562	blood:	n/a	n/a
29	FOSL1	chr3:156174484-156174844	K562	blood:	n/a	chr3:156174684-156174692 chr3:156174681-156174689 chr3:156174595-156174603
30	MYC	chr3:156174549-156174815	MCF-7	breast:	n/a	n/a
31	TEAD4	chr3:156174553-156175086	H1-hESC	embryonic stem cell:	n/a	n/a
32	YY1	chr3:156174550-156174946	K562	blood:	n/a	n/a
33	MYC	chr3:156174574-156174829	MCF-7	breast:	n/a	n/a
34	ATF3	chr3:156174513-156174800	K562	blood:	n/a	n/a
35	GABPA	chr3:156174442-156174942	MCF-7	breast:	n/a	n/a
36	YY1	chr3:156174507-156175054	ECC-1	luminal epithelium:	n/a	n/a
37	YY1	chr3:156174465-156175050	H1-hESC	embryonic stem cell:	n/a	n/a
38	MAX	chr3:156174442-156175085	H1-hESC	embryonic stem cell:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:156164530..156166342-chr3:156174319..156176025,2	MCF-7	breast:

Variant related genes	Relation type
KCNAB1	TF binding region
ENSG00000242370	Chromatin interaction

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs1106297	1.00[CHB][hapmap];0.90[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11924393	1.00[EUR][1000 genomes]
rs11924460	1.00[EUR][1000 genomes]
rs11928395	1.00[EUR][1000 genomes]
rs12053933	1.00[MEX][hapmap]
rs12163648	1.00[MEX][hapmap]
rs12493762	1.00[CHB][hapmap];0.88[JPT][hapmap];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12496391	1.00[EUR][1000 genomes]
rs1357434	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs2293196	1.00[CHB][hapmap];0.90[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3755632	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.82[JPT][hapmap];0.90[LWK][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3755633	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs3772263	1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs3772267	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs3796168	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs9289967	0.90[CHB][hapmap];0.80[JPT][hapmap]
rs9826583	1.00[EUR][1000 genomes]
rs9878855	1.00[MEX][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	nsv1014755	chr3:155889430-156411894	Flanking Active TSS Strong transcription Weak transcription Enhancers Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	40 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:38 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:156162600-156174800	Weak transcription	Brain Hippocampus Middle	brain
2	chr3:156170200-156176800	Weak transcription	Stomach Smooth Muscle	stomach
3	chr3:156170600-156176800	Weak transcription	Aorta	Aorta
4	chr3:156171000-156175400	Weak transcription	Right Ventricle	heart
5	chr3:156173000-156175400	Enhancers	iPS-15b Cell Line	embryonic stem cell
6	chr3:156173000-156178200	Weak transcription	Left Ventricle	heart
7	chr3:156173000-156180400	Enhancers	K562	blood
8	chr3:156173400-156175800	Enhancers	H1 Cell Line	embryonic stem cell
9	chr3:156173400-156177000	Enhancers	iPS-18 Cell Line	embryonic stem cell
10	chr3:156173600-156174800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
11	chr3:156173600-156175200	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
12	chr3:156173800-156175200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
13	chr3:156173800-156175200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
14	chr3:156173800-156176600	Enhancers	HUES48 Cell Line	embryonic stem cell
15	chr3:156174000-156175000	Enhancers	iPS-20b Cell Line	embryonic stem cell
16	chr3:156174000-156175200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
17	chr3:156174200-156174800	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
18	chr3:156174200-156175000	Enhancers	Cortex derived primary cultured neurospheres	brain
19	chr3:156174400-156175000	Enhancers	ES-I3 Cell Line	embryonic stem cell
20	chr3:156174400-156175000	Enhancers	NH-A	brain
21	chr3:156174400-156175200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
22	chr3:156174400-156175200	Enhancers	HMEC	breast
23	chr3:156174400-156175200	Enhancers	NHEK	skin
24	chr3:156174400-156175400	Enhancers	ES-WA7 Cell Line	embryonic stem cell
25	chr3:156174400-156175400	Enhancers	Colon Smooth Muscle	Colon
26	chr3:156174400-156175600	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
27	chr3:156174400-156176000	Enhancers	HUES64 Cell Line	embryonic stem cell
28	chr3:156174600-156174800	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
29	chr3:156174600-156174800	Flanking Active TSS	HUES6 Cell Line	embryonic stem cell
30	chr3:156174600-156174800	Bivalent Enhancer	Foreskin Fibroblast Primary Cells skin01	Skin
31	chr3:156174600-156174800	Enhancers	Brain Inferior Temporal Lobe	brain
32	chr3:156174600-156174800	Enhancers	Pancreas	Pancrea
33	chr3:156174600-156175000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
34	chr3:156174600-156175000	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
35	chr3:156174600-156175600	Enhancers	H9 Cell Line	embryonic stem cell
36	chr3:156174600-156175600	Enhancers	Breast Myoepithelial Primary Cells	Breast
37	chr3:156174600-156175600	Enhancers	Esophagus	oesophagus
38	chr3:156174600-156177200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

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