Variant report

Variant	rs1341263
Chromosome Location	chr10:93556855-93556856
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	NFIC	chr10:93556406-93557000	GM12878	blood:	n/a	n/a
2	STAT3	chr10:93556587-93557265	MCF10A-Er-Src	breast:	n/a	chr10:93557040-93557048
3	BATF	chr10:93556505-93557120	GM12878	blood:	n/a	n/a
4	KAP1	chr10:93556299-93557060	U2OS	brain:	n/a	n/a
5	RCOR1	chr10:93556634-93557199	K562	blood:	n/a	n/a
6	EBF1	chr10:93556602-93557057	GM12878	blood:	n/a	chr10:93556874-93556885
7	IRF4	chr10:93556495-93556987	GM12878	blood:	n/a	n/a
8	PBX3	chr10:93556800-93557001	GM12878	blood:	n/a	n/a
9	POLR2A	chr10:93556084-93556971	Raji	blood:	n/a	n/a
10	MAZ	chr10:93556305-93556886	GM12878	blood:	n/a	n/a
11	BCLAF1	chr10:93556541-93556994	GM12878	blood:	n/a	n/a
12	TBL1XR1	chr10:93556459-93557046	GM12878	blood:	n/a	n/a
13	BHLHE40	chr10:93556538-93556900	GM12878	blood:	n/a	n/a
14	POU2F2	chr10:93556312-93556967	GM12878	blood:	n/a	chr10:93556666-93556679
15	POU2F2	chr10:93556433-93556879	GM12878	blood:	n/a	chr10:93556666-93556679
16	POLR2A	chr10:93556830-93559405	H1-hESC	embryonic stem cell:	n/a	n/a
17	MXI1	chr10:93556496-93556910	GM12878	blood:	n/a	n/a
18	MTA3	chr10:93556169-93557128	GM12878	blood:	n/a	n/a
19	ATF2	chr10:93556426-93556940	GM12878	blood:	n/a	n/a
20	CUX1	chr10:93556840-93557574	K562	blood:	n/a	n/a
21	RUNX3	chr10:93556333-93557112	GM12878	blood:	n/a	n/a
22	NFYB	chr10:93556473-93557077	GM12878	blood:	n/a	n/a
23	KAP1	chr10:93556308-93557208	HEK293	kidney:	n/a	n/a
24	FOXM1	chr10:93556457-93556937	GM12878	blood:	n/a	n/a
25	FOS	chr10:93556677-93556877	MCF10A-Er-Src	breast:	n/a	n/a
26	PAX5	chr10:93556405-93557001	GM12878	blood:	n/a	n/a
27	RUNX3	chr10:93556362-93557040	GM12878	blood:	n/a	n/a
28	SP1	chr10:93556497-93556899	GM12878	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr10:93525967..93528056-chr10:93556170..93559024,2	MCF-7	breast:
2	chr10:93555222..93557965-chr10:93666465..93668632,2	MCF-7	breast:
3	chr10:93556770..93559224-chr10:93566498..93569343,3	MCF-7	breast:

Variant related genes	Relation type
TNKS2	TF binding region
ENSG00000228759	Chromatin interaction
ENSG00000180581	Chromatin interaction
ENSG00000272817	Chromatin interaction

Extended variants
information (count: 55 )
Associated
traits (count: 7 )

rSNPs within LD-proxies of this variant (count:55)

rs_ID	r²[population]
rs10509634	1.00[CEU][hapmap];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10509636	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs10748566	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10786014	1.00[CEU][hapmap];0.91[GIH][hapmap];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10786019	0.84[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs10881951	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10881958	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10881960	0.80[EUR][1000 genomes]
rs10881966	1.00[CEU][hapmap];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10881967	1.00[CEU][hapmap];0.81[GIH][hapmap];1.00[MEX][hapmap];0.94[MKK][hapmap];0.97[TSI][hapmap];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10881969	0.98[AFR][1000 genomes];0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10881971	1.00[ASW][hapmap];0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.87[GIH][hapmap];1.00[JPT][hapmap];0.97[LWK][hapmap];1.00[MEX][hapmap];0.89[TSI][hapmap];0.95[YRI][hapmap];0.98[AFR][1000 genomes];0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10881975	0.92[AFR][1000 genomes];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10881980	0.84[AFR][1000 genomes];0.82[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs10881981	0.84[AFR][1000 genomes];0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs10881985	0.81[EUR][1000 genomes]
rs10881989	0.90[CHB][hapmap];0.91[JPT][hapmap]
rs11186664	0.81[EUR][1000 genomes]
rs11186667	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11186668	0.82[EUR][1000 genomes]
rs11186697	0.95[AFR][1000 genomes];0.87[AMR][1000 genomes];0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12220444	0.84[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs12221087	0.95[AFR][1000 genomes];0.87[AMR][1000 genomes];0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12412538	0.84[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs12413090	0.84[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs12413256	0.84[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs12782935	0.98[AFR][1000 genomes];0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1417254	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs1418160	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1418162	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1539040	0.95[AFR][1000 genomes];0.87[AMR][1000 genomes];0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1592050	0.83[GIH][hapmap]
rs1856927	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1857060	0.84[EUR][1000 genomes]
rs1935029	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2050913	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2066275	1.00[ASW][hapmap];0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.87[GIH][hapmap];1.00[JPT][hapmap];0.97[LWK][hapmap];1.00[MEX][hapmap];0.89[TSI][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2153654	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2297960	0.84[AFR][1000 genomes];0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2421692	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2901505	0.88[CEU][hapmap];0.80[EUR][1000 genomes]
rs3758499	1.00[ASW][hapmap];0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.82[GIH][hapmap];1.00[JPT][hapmap];0.97[LWK][hapmap];1.00[MEX][hapmap];0.89[TSI][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs4244929	0.84[EUR][1000 genomes]
rs4390259	0.81[EUR][1000 genomes]
rs4933219	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7082350	0.84[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs7087365	0.84[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs7897499	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7906805	0.84[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs7912927	0.84[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs7913826	0.84[AFR][1000 genomes];0.82[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs7913999	0.84[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs7918686	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7919141	0.80[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.80[AFR][1000 genomes]
rs7921354	0.81[AFR][1000 genomes];0.82[EUR][1000 genomes]

mRNA abundance (count:7)

SNP	Gene	Cis/trans	Tissue	Source
rs1341263	TNKS2	cis	Skin Sun Exposed Lower leg	GTEx
rs1341263	TNKS2-AS1	cis	Heart Left Ventricle	GTEx
rs1341263	TNKS2	cis	parietal	SCAN
rs1341263	TNKS2	cis	cerebellum	SCAN
rs1341263	BTAF1	cis	cerebellum	SCAN
rs1341263	TNKS2	cis	Nerve Tibial	GTEx
rs1341263	TPBG	trans	lymphoblastoid	seeQTL

Chromatin state (count:117 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:93555800-93558000	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
2	chr10:93555800-93558000	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
3	chr10:93556000-93557000	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr10:93556000-93557000	Active TSS	Breast Myoepithelial Primary Cells	Breast
5	chr10:93556000-93557000	Active TSS	Pancreatic Islets	Pancreatic Islet
6	chr10:93556000-93557000	Active TSS	Rectal Smooth Muscle	rectum
7	chr10:93556000-93557200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
8	chr10:93556000-93557400	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
9	chr10:93556000-93557600	Flanking Active TSS	Dnd41	blood
10	chr10:93556000-93558000	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
11	chr10:93556000-93558000	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
12	chr10:93556000-93560000	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
13	chr10:93556000-93560000	Active TSS	Aorta	Aorta
14	chr10:93556000-93560000	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
15	chr10:93556000-93560200	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
16	chr10:93556000-93560200	Active TSS	Stomach Smooth Muscle	stomach
17	chr10:93556000-93560800	Active TSS	Right Atrium	heart
18	chr10:93556000-93561200	Active TSS	Ovary	ovary
19	chr10:93556200-93557000	Flanking Active TSS	Primary monocytes fromperipheralblood	blood
20	chr10:93556200-93557000	Active TSS	Stomach Mucosa	stomach
21	chr10:93556200-93557200	Active TSS	A549	lung
22	chr10:93556200-93557400	Flanking Active TSS	Muscle Satellite Cultured Cells	--
23	chr10:93556200-93557400	Flanking Active TSS	Fetal Thymus	thymus
24	chr10:93556200-93557600	Flanking Active TSS	Rectal Mucosa Donor 31	rectum
25	chr10:93556200-93557600	Flanking Active TSS	HepG2	liver
26	chr10:93556200-93557600	Flanking Active TSS	Osteobl	bone
27	chr10:93556200-93557800	Flanking Active TSS	HUES64 Cell Line	embryonic stem cell
28	chr10:93556200-93557800	Flanking Active TSS	iPS-15b Cell Line	embryonic stem cell
29	chr10:93556200-93557800	Flanking Active TSS	iPS-18 Cell Line	embryonic stem cell
30	chr10:93556200-93557800	Flanking Active TSS	Primary T helper naive cells fromperipheralblood	blood
31	chr10:93556200-93557800	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
32	chr10:93556200-93557800	Flanking Active TSS	Adipose Nuclei	Adipose
33	chr10:93556200-93557800	Flanking Active TSS	NHEK	skin
34	chr10:93556200-93558000	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
35	chr10:93556200-93558000	Flanking Active TSS	Primary T cells from cord blood	blood
36	chr10:93556200-93558000	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
37	chr10:93556200-93558000	Flanking Active TSS	HMEC	breast
38	chr10:93556200-93559800	Active TSS	Fetal Stomach	stomach
39	chr10:93556200-93560000	Active TSS	Colonic Mucosa	Colon
40	chr10:93556200-93560200	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
41	chr10:93556200-93560200	Active TSS	Right Ventricle	heart
42	chr10:93556200-93560800	Active TSS	Psoas Muscle	Psoas
43	chr10:93556200-93562000	Active TSS	Skeletal Muscle Male	skeletal muscle
44	chr10:93556400-93557000	Active TSS	HSMMtube	muscle
45	chr10:93556400-93557200	Flanking Active TSS	ES-I3 Cell Line	embryonic stem cell
46	chr10:93556400-93557200	Enhancers	Placenta Amnion	Placenta Amnion
47	chr10:93556400-93557200	Enhancers	Hela-S3	cervix
48	chr10:93556400-93557400	Enhancers	Cortex derived primary cultured neurospheres	brain
49	chr10:93556400-93557400	Flanking Active TSS	Fetal Lung	lung
50	chr10:93556400-93557600	Flanking Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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