Variant report

Variant	rs73068964
Chromosome Location	chr1:188858022-188858023
allele	G/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	TCF12	chr1:188857256-188858207	SK-N-SH	brain:	n/a	n/a
2	NFIC	chr1:188857359-188858118	SK-N-SH	brain:	n/a	n/a
3	TCF12	chr1:188857350-188858179	SK-N-SH	brain:	n/a	n/a
4	JUND	chr1:188857328-188858115	SK-N-SH	brain:	n/a	n/a
5	GATA3	chr1:188857431-188858067	A549	lung:	n/a	n/a
6	GATA3	chr1:188857232-188858279	SK-N-SH	brain:	n/a	n/a
7	FOSL2	chr1:188857392-188858061	SK-N-SH	brain:	n/a	n/a
8	EP300	chr1:188857328-188858092	SK-N-SH	brain:	n/a	n/a
9	RAD21	chr1:188857335-188858087	Hela-S3	cervix:	n/a	n/a
10	JUND	chr1:188857426-188858046	SK-N-SH	brain:	n/a	n/a
11	GATA3	chr1:188857179-188858286	SK-N-SH	brain:	n/a	n/a
12	PBX3	chr1:188857307-188858051	SK-N-SH	brain:	n/a	n/a
13	GATA3	chr1:188857517-188858053	MCF-7	breast:	n/a	n/a
14	PBX3	chr1:188857365-188858024	SK-N-SH	brain:	n/a	n/a
15	STAT3	chr1:188857542-188858076	MCF10A-Er-Src	breast:	n/a	n/a
16	EP300	chr1:188857339-188858091	Hela-S3	cervix:	n/a	n/a
17	TCF7L2	chr1:188857376-188858033	Hela-S3	cervix:	n/a	n/a
18	CEBPB	chr1:188857286-188858045	Hela-S3	cervix:	n/a	n/a

Variant related genes	Relation type
ENSG00000238054	TF binding region

Extended variants
information (count: 98 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:52)

rs_ID	r²[population]
rs10494620	0.93[ASN][1000 genomes]
rs10920923	0.93[ASN][1000 genomes]
rs12239029	1.00[ASN][1000 genomes]
rs1445670	0.81[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs1445671	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1445672	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1445673	1.00[ASN][1000 genomes]
rs1445674	1.00[ASN][1000 genomes]
rs16829499	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16829521	0.84[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs16829525	0.84[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs16829527	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs16829528	0.88[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs16829531	0.82[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs16829532	0.82[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs16829534	0.82[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs16829536	0.82[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs16829539	0.82[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs16829542	0.81[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs16829562	0.81[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs16829563	0.81[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs16829637	0.93[ASN][1000 genomes]
rs16829642	0.93[ASN][1000 genomes]
rs16829647	0.93[ASN][1000 genomes]
rs41468148	1.00[ASN][1000 genomes]
rs60025276	0.93[ASN][1000 genomes]
rs6428035	0.93[ASN][1000 genomes]
rs6671266	0.81[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs6679894	0.82[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs6679901	0.81[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs73050394	0.82[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs73052403	0.81[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs73057858	0.93[ASN][1000 genomes]
rs73068952	1.00[ASN][1000 genomes]
rs73068953	1.00[ASN][1000 genomes]
rs73068955	1.00[ASN][1000 genomes]
rs73068956	1.00[ASN][1000 genomes]
rs73068957	1.00[ASN][1000 genomes]
rs73068959	1.00[ASN][1000 genomes]
rs73068960	1.00[ASN][1000 genomes]
rs73068963	1.00[ASN][1000 genomes]
rs73068971	1.00[ASN][1000 genomes]
rs73068976	1.00[ASN][1000 genomes]
rs73068977	1.00[ASN][1000 genomes]
rs73068979	1.00[ASN][1000 genomes]
rs74138016	0.93[ASN][1000 genomes]
rs74138017	0.93[ASN][1000 genomes]
rs74138196	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74140004	1.00[ASN][1000 genomes]
rs9427749	1.00[ASN][1000 genomes]
rs9804040	1.00[ASN][1000 genomes]
rs9804108	1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:46 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1008537	chr1:188591251-188972682	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	nsv997246	chr1:188609800-188961632	Enhancers Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv535229	chr1:188609800-188961632	Active TSS Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
4	nsv872621	chr1:188647587-189128124	Enhancers Flanking Active TSS Weak transcription Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
5	nsv872622	chr1:188677169-188870483	Enhancers ZNF genes & repeats Active TSS Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
6	esv2762410	chr1:188705757-189121717	Active TSS Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
7	nsv872623	chr1:188711452-189128124	Enhancers Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
8	nsv872624	chr1:188711452-189337997	Enhancers Active TSS Weak transcription Genic enhancers ZNF genes & repeats Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
9	nsv1001827	chr1:188730015-189126074	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
10	nsv1006082	chr1:188730015-189163489	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
11	nsv535230	chr1:188730015-189163489	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
12	esv2754486	chr1:188731343-189181343	Active TSS Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
13	nsv466417	chr1:188735336-188870483	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
14	nsv548475	chr1:188735336-188870483	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
15	nsv872625	chr1:188746396-188870483	Enhancers ZNF genes & repeats Active TSS Weak transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
16	nsv548477	chr1:188750901-188870483	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
17	nsv872626	chr1:188750901-189343623	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
18	nsv466428	chr1:188760628-188870483	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
19	nsv548478	chr1:188760628-188870483	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
20	nsv466439	chr1:188764543-188870483	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
21	nsv548479	chr1:188764543-188870483	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
22	nsv872627	chr1:188764543-189188538	Weak transcription Flanking Active TSS Enhancers Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
23	nsv872628	chr1:188764543-189211622	Active TSS Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
24	nsv466450	chr1:188770589-188883037	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
25	nsv548480	chr1:188770589-188883037	Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Weak transcription	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
26	nsv872629	chr1:188770589-189117170	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
27	nsv872630	chr1:188773111-189128124	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
28	nsv872631	chr1:188773111-189282802	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
29	nsv1005282	chr1:188773549-189191697	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
30	nsv535231	chr1:188773549-189191697	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
31	nsv548481	chr1:188787390-188888360	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
32	nsv466461	chr1:188802542-188931828	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
33	nsv548482	chr1:188802542-188931828	Enhancers ZNF genes & repeats Active TSS Weak transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
34	nsv872632	chr1:188802542-188931828	Active TSS Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
35	nsv872633	chr1:188802542-189147056	Enhancers ZNF genes & repeats Flanking Active TSS Weak transcription Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
36	nsv548483	chr1:188802542-189672228	Weak transcription Enhancers Genic enhancers ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
37	nsv872634	chr1:188806530-188862962	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
38	nsv872635	chr1:188813880-188870483	Enhancers ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
39	nsv872636	chr1:188822394-188883037	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
40	nsv1001114	chr1:188835200-188961632	Weak transcription Enhancers Flanking Active TSS Active TSS	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
41	nsv947457	chr1:188837500-188864451	Enhancers Flanking Active TSS Weak transcription	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
42	nsv1002943	chr1:188839762-189125021	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
43	nsv1009962	chr1:188849003-189605507	Active TSS ZNF genes & repeats Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
44	nsv535232	chr1:188849003-189605507	Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
45	nsv517867	chr1:188850774-188967356	Flanking Active TSS Weak transcription Enhancers Active TSS	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
46	nsv526242	chr1:188850774-188967356	Weak transcription Enhancers Active TSS Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:188857600-188859200	Weak transcription	Hela-S3	cervix

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