Variant report

Variant	rs1620326
Chromosome Location	chr10:25754781-25754782
allele	C/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	NFYB	chr10:25754769-25755135	K562	blood:	n/a	chr10:25754899-25754912 chr10:25754899-25754914 chr10:25754898-25754910 chr10:25754899-25754914 chr10:25754899-25754913 chr10:25754946-25754959
2	POLR2A	chr10:25754627-25755404	K562	blood:	n/a	n/a
3	POLR2A	chr10:25754641-25755318	K562	blood:	n/a	n/a
4	JUND	chr10:25754703-25755265	K562	blood:	n/a	n/a
5	POLR2A	chr10:25754722-25755352	K562	blood:	n/a	n/a
6	SPI1	chr10:25754676-25754956	K562	blood:	n/a	n/a
7	FOXA1	chr10:25754692-25754989	T-47D	breast:	n/a	n/a
8	ELF1	chr10:25754701-25755269	HCT-116	colon:	n/a	n/a
9	ELF1	chr10:25754665-25755437	K562	blood:	n/a	n/a
10	GABPA	chr10:25754549-25755559	MCF-7	breast:	n/a	n/a
11	NFYA	chr10:25754740-25755100	K562	blood:	n/a	chr10:25754899-25754912 chr10:25754899-25754914 chr10:25754898-25754910 chr10:25754899-25754914 chr10:25754899-25754913 chr10:25754946-25754959
12	ZMIZ1	chr10:25754578-25755125	K562	blood:	n/a	n/a
13	MAX	chr10:25754528-25755259	K562	blood:	n/a	n/a
14	BHLHE40	chr10:25754691-25755304	K562	blood:	n/a	n/a
15	FOXA1	chr10:25754648-25754956	T-47D	breast:	n/a	n/a
16	RCOR1	chr10:25754577-25755221	K562	blood:	n/a	n/a
17	HEY1	chr10:25754671-25755374	K562	blood:	n/a	n/a
18	ARID3A	chr10:25754653-25755180	K562	blood:	n/a	n/a
19	TBL1XR1	chr10:25754682-25755342	K562	blood:	n/a	n/a
20	CUX1	chr10:25754585-25755521	K562	blood:	n/a	n/a
21	ELF1	chr10:25754584-25755414	MCF-7	breast:	n/a	n/a
22	IRF1	chr10:25754654-25755382	K562	blood:	n/a	chr10:25754901-25754910 chr10:25755103-25755124 chr10:25754893-25754900
23	MAX	chr10:25754556-25755346	K562	blood:	n/a	n/a
24	MYC	chr10:25754626-25755347	K562	blood:	n/a	n/a
25	MAZ	chr10:25754662-25755269	K562	blood:	n/a	n/a
26	HCFC1	chr10:25754684-25755386	K562	blood:	n/a	n/a
27	ELF1	chr10:25754607-25755443	HCT-116	colon:	n/a	n/a
28	TBP	chr10:25754611-25755340	K562	blood:	n/a	n/a
29	MYC	chr10:25754500-25755459	K562	blood:	n/a	n/a
30	HEY1	chr10:25754707-25755153	K562	blood:	n/a	n/a
31	EP300	chr10:25754747-25755273	K562	blood:	n/a	n/a
32	CBX3	chr10:25754495-25755263	K562	blood:	n/a	n/a
33	RCOR1	chr10:25754660-25755197	K562	blood:	n/a	n/a
34	IRF1	chr10:25754655-25755783	K562	blood:	n/a	chr10:25754901-25754910 chr10:25755103-25755124 chr10:25755654-25755670 chr10:25754893-25754900
35	POLR2A	chr10:25754740-25755332	K562	blood:	n/a	n/a
36	GABPA	chr10:25754655-25755323	MCF-7	breast:	n/a	n/a
37	SPI1	chr10:25754733-25754922	K562	blood:	n/a	n/a
38	POLR2A	chr10:25754755-25755411	K562	blood:	n/a	n/a
39	ELF1	chr10:25754575-25755315	K562	blood:	n/a	n/a
40	IRF1	chr10:25754577-25755986	K562	blood:	n/a	chr10:25754901-25754910 chr10:25755103-25755124 chr10:25755654-25755670 chr10:25754893-25754900
41	CHD2	chr10:25754693-25755306	K562	blood:	n/a	n/a

Variant related genes	Relation type
GPR158	TF binding region

Extended variants
information (count: 62 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:61)

rs_ID	r²[population]
rs10508695	1.00[CHB][hapmap];0.92[CHD][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs10508696	1.00[CHB][hapmap];0.92[CHD][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs1069531	0.85[AFR][1000 genomes];0.91[AMR][1000 genomes];0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11014576	0.99[ASN][1000 genomes]
rs12415532	0.89[CHB][hapmap];0.92[CHD][hapmap];0.92[JPT][hapmap];0.90[ASN][1000 genomes]
rs12763436	1.00[CHB][hapmap];0.96[CHD][hapmap];0.95[ASN][1000 genomes]
rs12766947	0.99[ASN][1000 genomes]
rs12770449	0.95[ASN][1000 genomes]
rs12770880	0.95[ASN][1000 genomes]
rs12778509	0.99[ASN][1000 genomes]
rs1329255	0.81[CHD][hapmap];0.92[JPT][hapmap];0.83[ASN][1000 genomes]
rs1329256	1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs1329257	0.91[JPT][hapmap];0.84[ASN][1000 genomes]
rs1360123	0.90[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1361634	0.89[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];0.82[GIH][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs1410931	0.92[CEU][hapmap];1.00[CHB][hapmap];0.85[AFR][1000 genomes];0.92[AMR][1000 genomes];0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1590833	0.89[CHB][hapmap];0.92[JPT][hapmap];0.86[ASN][1000 genomes]
rs1592137	0.88[CHB][hapmap];0.91[JPT][hapmap];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1773636	0.91[CEU][hapmap];0.83[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs1773637	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1928365	0.84[JPT][hapmap];0.83[ASN][1000 genomes]
rs2211344	0.86[AMR][1000 genomes]
rs2480348	0.92[CEU][hapmap];1.00[CHB][hapmap];0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2480349	0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2487819	0.86[ASW][hapmap];0.89[CEU][hapmap];1.00[CHB][hapmap];0.93[GIH][hapmap];0.89[TSI][hapmap];0.85[AFR][1000 genomes];0.92[AMR][1000 genomes];0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2987832	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2987833	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2987834	1.00[ASN][1000 genomes]
rs2987835	1.00[ASN][1000 genomes]
rs2987836	1.00[ASN][1000 genomes]
rs2987838	0.81[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];0.84[TSI][hapmap];0.86[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2987839	0.86[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2987840	0.83[ASN][1000 genomes]
rs3005181	0.83[ASN][1000 genomes]
rs3005182	0.81[CHD][hapmap];0.92[JPT][hapmap];0.83[ASN][1000 genomes]
rs3005187	0.81[ASN][1000 genomes]
rs3005189	0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3005191	0.89[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];0.83[GIH][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs3005193	0.91[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3123901	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs34535236	0.99[ASN][1000 genomes]
rs36146927	0.94[ASN][1000 genomes]
rs4408231	0.82[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs4545439	0.89[CHB][hapmap];0.92[CHD][hapmap];0.86[ASN][1000 genomes]
rs4630196	0.86[AMR][1000 genomes]
rs57048226	0.99[ASN][1000 genomes]
rs66516873	0.99[ASN][1000 genomes]
rs67290477	0.99[ASN][1000 genomes]
rs67616835	0.99[ASN][1000 genomes]
rs702980	0.86[ASW][hapmap];0.92[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.86[LWK][hapmap];0.87[TSI][hapmap];0.85[AFR][1000 genomes];0.91[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7075106	0.92[ASN][1000 genomes]
rs7084979	1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs7085111	0.99[ASN][1000 genomes]
rs7086959	0.92[ASN][1000 genomes]
rs7089568	0.96[ASN][1000 genomes]
rs824588	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AFR][1000 genomes];0.89[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs824589	0.92[CEU][hapmap];0.93[GIH][hapmap];0.83[TSI][hapmap]
rs824607	0.85[CEU][hapmap];1.00[CHB][hapmap];0.89[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.87[TSI][hapmap];0.84[AMR][1000 genomes];0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs824608	0.90[AMR][1000 genomes];0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs824609	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs824610	0.86[ASW][hapmap];0.89[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.84[TSI][hapmap];0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[ASN][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	esv3349863	chr10:25614571-25946379	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:25745200-25755000	Weak transcription	Cortex derived primary cultured neurospheres	brain
2	chr10:25750200-25754800	Weak transcription	Placenta	Placenta
3	chr10:25754400-25754800	Enhancers	iPS-18 Cell Line	embryonic stem cell
4	chr10:25754400-25755800	Active TSS	K562	blood
5	chr10:25754600-25754800	Enhancers	ES-I3 Cell Line	embryonic stem cell
6	chr10:25754600-25754800	Active TSS	Dnd41	blood
7	chr10:25754600-25755400	Enhancers	iPS-15b Cell Line	embryonic stem cell
8	chr10:25754600-25755800	Enhancers	ES-WA7 Cell Line	embryonic stem cell
9	chr10:25754600-25756000	Enhancers	HUES48 Cell Line	embryonic stem cell

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