Variant report

Variant	rs12572869
Chromosome Location	chr10:91413368-91413369
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:53)
CpG islands
(count:0)
Chromatin interactive
region (count:1)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:53 , 50 per page) page: 1 2

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	NFATC1	chr10:91413018-91413718	GM12878	blood:	n/a	n/a
2	CUX1	chr10:91413149-91413590	GM12878	blood:	n/a	n/a
3	MTA3	chr10:91412993-91413646	GM12878	blood:	n/a	n/a
4	FOXM1	chr10:91412987-91413760	GM12878	blood:	n/a	n/a
5	EBF1	chr10:91413085-91413540	GM12878	blood:	n/a	n/a
6	EP300	chr10:91413078-91413767	GM12878	blood:	n/a	chr10:91413547-91413556
7	STAT5A	chr10:91413085-91413621	GM12878	blood:	n/a	n/a
8	CEBPB	chr10:91412972-91413780	GM12878	blood:	n/a	n/a
9	MEF2A	chr10:91413146-91413825	GM12878	blood:	n/a	n/a
10	SMC3	chr10:91413167-91413454	GM12878	blood:	n/a	n/a
11	EP300	chr10:91413124-91413789	GM12878	blood:	n/a	chr10:91413547-91413556
12	EP300	chr10:91413046-91413394	HepG2	liver:	n/a	n/a
13	RELA	chr10:91412762-91413656	GM12891	blood:	n/a	n/a
14	ATF2	chr10:91412991-91413739	GM12878	blood:	n/a	n/a
15	ATF2	chr10:91413037-91413709	GM12878	blood:	n/a	n/a
16	MAX	chr10:91413002-91413660	GM12878	blood:	n/a	n/a
17	BCL11A	chr10:91413011-91413610	GM12878	blood:	n/a	n/a
18	MAZ	chr10:91413162-91413680	GM12878	blood:	n/a	n/a
19	RUNX3	chr10:91413023-91413752	GM12878	blood:	n/a	n/a
20	POLR2A	chr10:91413107-91413657	GM12878	blood:	n/a	n/a
21	CREB1	chr10:91413029-91413787	GM12878	blood:	n/a	n/a
22	TBL1XR1	chr10:91413111-91413841	GM12878	blood:	n/a	n/a
23	EBF1	chr10:91413173-91413641	GM12878	blood:	n/a	n/a
24	PML	chr10:91412908-91413855	GM12878	blood:	n/a	n/a
25	EBF1	chr10:91413145-91413418	GM12878	blood:	n/a	n/a
26	NFATC1	chr10:91413103-91413698	GM12878	blood:	n/a	n/a
27	EP300	chr10:91413148-91413781	GM12878	blood:	n/a	chr10:91413547-91413556
28	SP1	chr10:91413111-91413630	GM12878	blood:	n/a	n/a
29	PAX5	chr10:91413024-91413629	GM12878	blood:	n/a	n/a
30	RCOR1	chr10:91413052-91413677	GM12878	blood:	n/a	n/a
31	TEAD4	chr10:91412861-91413495	HepG2	liver:	n/a	n/a
32	NFIC	chr10:91412984-91413810	GM12878	blood:	n/a	n/a
33	FOXM1	chr10:91412944-91413655	GM12878	blood:	n/a	n/a
34	BCLAF1	chr10:91413091-91413772	GM12878	blood:	n/a	n/a
35	ZNF384	chr10:91413166-91413678	GM12878	blood:	n/a	n/a
36	USF2	chr10:91413361-91413693	GM12878	blood:	n/a	n/a
37	SP1	chr10:91413043-91413734	GM12878	blood:	n/a	n/a
38	MXI1	chr10:91413160-91413586	GM12878	blood:	n/a	n/a
39	NFIC	chr10:91412799-91413803	GM12878	blood:	n/a	n/a
40	IKZF1	chr10:91413048-91413655	GM12878	blood:	n/a	n/a
41	NFYB	chr10:91413272-91413748	GM12878	blood:	n/a	n/a
42	RUNX3	chr10:91412776-91413703	GM12878	blood:	n/a	n/a
43	MTA3	chr10:91412948-91413815	GM12878	blood:	n/a	n/a
44	CHD2	chr10:91413092-91413728	GM12878	blood:	n/a	n/a
45	MEF2A	chr10:91413067-91413698	GM12878	blood:	n/a	n/a
46	MEF2C	chr10:91412976-91413773	GM12878	blood:	n/a	n/a
47	BATF	chr10:91413090-91413663	GM12878	blood:	n/a	n/a
48	BATF	chr10:91413147-91413498	GM12878	blood:	n/a	n/a
49	STAT3	chr10:91413146-91413656	GM12878	blood:	n/a	n/a
50	IRF4	chr10:91413132-91413609	GM12878	blood:	n/a	n/a

No data

(count:1 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:91402831..91405686-chr10:91411842..91414196,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000225836	TF binding region
ENSG00000152782	Chromatin interaction
ENSG00000232936	Chromatin interaction
ENSG00000249962	Chromatin interaction

Extended variants
information (count: 63 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:63)

rs_ID	r²[population]
rs10881613	0.86[CEU][hapmap]
rs10881629	0.83[JPT][hapmap]
rs11185866	0.83[JPT][hapmap]
rs1129777	0.97[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11330	1.00[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12250365	0.83[JPT][hapmap]
rs12570750	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12570813	0.81[CHB][hapmap];0.95[AMR][1000 genomes];0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12571268	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12571918	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12572012	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12572608	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12572928	0.93[AMR][1000 genomes];0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12763346	0.92[AMR][1000 genomes];0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12764076	0.95[AMR][1000 genomes];0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12771413	1.00[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12775091	0.93[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12775783	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12783582	0.97[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12783845	1.00[CEU][hapmap];0.90[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.97[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1359624	0.91[CEU][hapmap]
rs1409357	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1590566	0.88[ASN][1000 genomes]
rs17125834	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17126269	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17127001	1.00[CEU][hapmap];0.84[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs17127588	0.87[AMR][1000 genomes]
rs17127596	0.89[AMR][1000 genomes]
rs1926139	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1969902	0.88[ASN][1000 genomes]
rs2094214	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2418929	1.00[CEU][hapmap];0.84[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs34379399	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs34408087	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs34486602	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs34591435	0.97[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs34663515	1.00[AMR][1000 genomes];0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs34692063	0.97[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs34784021	0.87[ASN][1000 genomes]
rs34928397	0.90[AMR][1000 genomes];0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs34993776	0.93[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs36019294	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3740033	0.91[CEU][hapmap]
rs3740034	0.92[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs3740035	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3758388	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3824607	0.97[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3925446	0.97[AMR][1000 genomes];0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3962370	0.88[ASN][1000 genomes]
rs4934494	0.91[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs55823491	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs56189305	0.93[ASN][1000 genomes]
rs58163515	0.92[AMR][1000 genomes];0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6586213	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs67111731	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67827533	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7081788	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7098233	0.91[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs72818784	0.87[ASN][1000 genomes]
rs745215	0.99[ASN][1000 genomes]
rs768805	0.97[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs927907	0.87[CEU][hapmap]
rs9325444	0.83[JPT][hapmap]

No data

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:91406400-91414200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
2	chr10:91406600-91413800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
3	chr10:91406600-91415800	Weak transcription	Colonic Mucosa	Colon
4	chr10:91407200-91418400	Weak transcription	Psoas Muscle	Psoas
5	chr10:91409000-91418800	Weak transcription	Skeletal Muscle Male	skeletal muscle
6	chr10:91411200-91414000	Enhancers	Primary B cells from peripheral blood	blood
7	chr10:91411200-91414400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
8	chr10:91411400-91413400	Enhancers	Primary hematopoietic stem cells short term culture	blood
9	chr10:91411800-91414000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
10	chr10:91412200-91413400	Enhancers	Fetal Intestine Large	intestine
11	chr10:91412200-91413600	Enhancers	Fetal Intestine Small	intestine
12	chr10:91412200-91414000	Flanking Active TSS	GM12878-XiMat	blood
13	chr10:91412400-91415800	Enhancers	HepG2	liver
14	chr10:91412600-91413800	Enhancers	HMEC	breast
15	chr10:91412800-91413400	Enhancers	Breast Myoepithelial Primary Cells	Breast
16	chr10:91412800-91413600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
17	chr10:91412800-91413600	Enhancers	HSMM	muscle
18	chr10:91412800-91413600	Flanking Active TSS	NH-A	brain
19	chr10:91412800-91413600	Enhancers	Osteobl	bone
20	chr10:91412800-91414000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
21	chr10:91413000-91413400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin

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