Variant report

Variant	rs10121939
Chromosome Location	chr9:103947196-103947197
allele	C/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	HEY1	chr9:103946961-103947462	HepG2	liver:	n/a	n/a
2	TEAD4	chr9:103946917-103947419	HepG2	liver:	n/a	n/a
3	FOXA2	chr9:103946989-103947459	HepG2	liver:	n/a	n/a
4	POLR2A	chr9:103947181-103947470	HepG2	liver:	n/a	n/a
5	MYBL2	chr9:103947003-103947506	HepG2	liver:	n/a	n/a
6	POLR2A	chr9:103947004-103947655	HepG2	liver:	n/a	n/a
7	FOXA1	chr9:103947034-103947520	HepG2	liver:	n/a	n/a
8	MXI1	chr9:103947073-103947400	HepG2	liver:	n/a	n/a
9	NFIC	chr9:103946941-103947571	HepG2	liver:	n/a	n/a
10	POLR2A	chr9:103946973-103947543	HepG2	liver:	n/a	n/a
11	EP300	chr9:103947065-103947448	HepG2	liver:	n/a	n/a
12	TCF7L2	chr9:103946763-103947786	HepG2	liver:	n/a	chr9:103947286-103947293 chr9:103947283-103947293 chr9:103947285-103947294
13	SP1	chr9:103946965-103947496	HepG2	liver:	n/a	n/a
14	MYBL2	chr9:103946927-103947809	HepG2	liver:	n/a	n/a
15	FOXA1	chr9:103946951-103947540	HepG2	liver:	n/a	n/a
16	POLR2A	chr9:103947117-103947509	HepG2	liver:	n/a	n/a
17	MAZ	chr9:103947055-103947829	HepG2	liver:	n/a	n/a
18	ELF1	chr9:103947118-103947384	HepG2	liver:	n/a	n/a
19	NFIC	chr9:103947030-103947448	HepG2	liver:	n/a	n/a
20	SIN3AK20	chr9:103947162-103947383	HepG2	liver:	n/a	n/a
21	EP300	chr9:103946939-103947440	HepG2	liver:	n/a	n/a
22	FOXA1	chr9:103947032-103947516	HepG2	liver:	n/a	n/a
23	MBD4	chr9:103946942-103947535	HepG2	liver:	n/a	n/a
24	FOXA1	chr9:103946859-103947530	HepG2	liver:	n/a	n/a
25	BHLHE40	chr9:103947155-103947481	HepG2	liver:	n/a	n/a
26	ARID3A	chr9:103946778-103947810	HepG2	liver:	n/a	n/a
27	FOXA2	chr9:103946550-103947791	HepG2	liver:	n/a	chr9:103947547-103947559

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:26250131..26252759-chr9:103947028..103949743,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000148123	TF binding region
ENSG00000256316	Chromatin interaction
ENSG00000197459	Chromatin interaction

Extended variants
information (count: 46 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs10113988	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10117175	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10989422	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10989423	0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10989424	0.95[CHB][hapmap];0.95[JPT][hapmap];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10989425	1.00[CEU][hapmap];0.95[CHB][hapmap];0.89[JPT][hapmap];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10989426	1.00[CEU][hapmap];0.95[CHB][hapmap];0.90[JPT][hapmap];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12336617	0.95[CHB][hapmap];0.95[JPT][hapmap];0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12336728	0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12338716	0.90[JPT][hapmap];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12339921	0.95[CHB][hapmap];0.94[JPT][hapmap];0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12339994	0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12342841	0.83[CEU][hapmap];0.99[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs12344631	0.88[JPT][hapmap];0.86[AMR][1000 genomes]
rs12345075	0.99[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12345440	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12346158	0.99[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs12346223	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12346256	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12347855	1.00[CEU][hapmap];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12349128	1.00[CEU][hapmap];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12350583	0.99[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs12351067	0.83[CEU][hapmap];0.94[CHB][hapmap];0.89[JPT][hapmap];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12352151	1.00[CEU][hapmap];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12353249	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12685239	0.83[CEU][hapmap];0.94[CHB][hapmap];0.94[JPT][hapmap];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12686592	0.95[CHB][hapmap];0.94[JPT][hapmap];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1431476	0.94[CHB][hapmap];0.90[JPT][hapmap];0.81[ASN][1000 genomes]
rs1431477	1.00[CEU][hapmap];0.81[CHB][hapmap];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs16920038	1.00[CEU][hapmap];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs16920055	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2116285	0.94[CHB][hapmap];0.95[JPT][hapmap];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2303980	0.95[CHB][hapmap];0.95[JPT][hapmap];0.81[ASN][1000 genomes]
rs2567308	0.84[JPT][hapmap]
rs2915418	0.81[ASN][1000 genomes]
rs2987735	0.94[JPT][hapmap]
rs2987737	0.89[JPT][hapmap]
rs57056311	0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs58661374	0.99[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs61342570	0.84[AMR][1000 genomes]
rs61654883	0.99[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs67133619	0.86[AMR][1000 genomes]
rs7029916	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs735847	0.94[CHB][hapmap];0.95[JPT][hapmap];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv831671	chr9:103858107-104020816	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	nsv948791	chr9:103893030-103964650	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh	TF binding region Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:103946000-103947200	Enhancers	HepG2	liver
2	chr9:103946600-103947400	Enhancers	Liver	Liver
3	chr9:103946800-103947200	Enhancers	Fetal Kidney	kidney
4	chr9:103947000-103947200	Enhancers	Pancreatic Islets	Pancreatic Islet
5	chr9:103947000-103947200	Enhancers	A549	lung
6	chr9:103947000-103947600	Enhancers	Fetal Adrenal Gland	Adrenal Gland

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