Variant report

Variant	rs72843802
Chromosome Location	chr6:26517515-26517516
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	NR2F2	chr6:26517099-26517814	HepG2	liver:	n/a	n/a
2	HDAC2	chr6:26517199-26517637	HepG2	liver:	n/a	n/a
3	HNF4G	chr6:26517262-26517603	HepG2	liver:	n/a	chr6:26517436-26517449 chr6:26517436-26517449 chr6:26517434-26517449 chr6:26517437-26517450 chr6:26517437-26517449
4	HDAC2	chr6:26517247-26517652	HepG2	liver:	n/a	n/a
5	FOXA2	chr6:26516913-26517725	HepG2	liver:	n/a	n/a
6	BHLHE40	chr6:26517302-26517728	HepG2	liver:	n/a	n/a
7	EP300	chr6:26517176-26517676	HepG2	liver:	n/a	n/a
8	SP1	chr6:26517218-26517668	HepG2	liver:	n/a	n/a
9	MYBL2	chr6:26517066-26517794	HepG2	liver:	n/a	n/a
10	SMC3	chr6:26517330-26517629	HepG2	liver:	n/a	n/a
11	FOXA2	chr6:26517265-26517637	HepG2	liver:	n/a	n/a
12	RXRA	chr6:26517263-26517618	HepG2	liver:	n/a	chr6:26517441-26517450
13	HNF4A	chr6:26517261-26517614	HepG2	liver:	n/a	chr6:26517436-26517449 chr6:26517436-26517449 chr6:26517437-26517450 chr6:26517435-26517450 chr6:26517437-26517449
14	MXI1	chr6:26517375-26517667	HepG2	liver:	n/a	n/a
15	FOXA1	chr6:26517114-26517836	HepG2	liver:	n/a	n/a
16	ARID3A	chr6:26517220-26517633	HepG2	liver:	n/a	n/a
17	CEBPB	chr6:26517245-26517590	HepG2	liver:	n/a	n/a
18	HNF4A	chr6:26517282-26517624	HepG2	liver:	n/a	chr6:26517436-26517449 chr6:26517436-26517449 chr6:26517437-26517450 chr6:26517435-26517450 chr6:26517437-26517449
19	NR2F2	chr6:26517180-26517765	HepG2	liver:	n/a	n/a
20	EP300	chr6:26517252-26517725	HepG2	liver:	n/a	n/a
21	FOXA1	chr6:26517274-26517675	HepG2	liver:	n/a	n/a
22	FOXA1	chr6:26517210-26517731	HepG2	liver:	n/a	n/a
23	MYBL2	chr6:26517175-26517719	HepG2	liver:	n/a	n/a
24	TEAD4	chr6:26517149-26517744	HepG2	liver:	n/a	n/a
25	MYC	chr6:26517453-26517517	HepG2	liver:	n/a	n/a
26	MAX	chr6:26517211-26517781	HepG2	liver:	n/a	n/a
27	FOXA1	chr6:26517118-26517716	HepG2	liver:	n/a	n/a
28	EP300	chr6:26517331-26517553	HepG2	liver:	n/a	n/a
29	MAX	chr6:26517388-26517588	HepG2	liver:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr6:26505036..26509551-chr6:26513654..26517917,7	K562	blood:
2	chr6:26170252..26172933-chr6:26517491..26519149,2	K562	blood:
3	chr6:26491622..26495206-chr6:26516506..26519658,3	K562	blood:
4	chr6:26248993..26251599-chr6:26516080..26517896,3	MCF-7	breast:

Variant related genes	Relation type
HCG11	TF binding region
ENSG00000256316	Chromatin interaction

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs10456330	1.00[AFR][1000 genomes];0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs12189841	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12195971	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs12199239	1.00[AFR][1000 genomes];0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs12200782	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs12201802	1.00[AFR][1000 genomes];0.86[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs12201890	0.83[EUR][1000 genomes]
rs12202419	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs12204145	0.90[EUR][1000 genomes]
rs12205909	0.83[EUR][1000 genomes]
rs12207181	1.00[AFR][1000 genomes];0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs12207224	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12208390	1.00[AFR][1000 genomes];0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs12209651	0.83[EUR][1000 genomes]
rs12211201	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs12212145	0.83[EUR][1000 genomes]
rs12213722	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs3800304	0.90[EUR][1000 genomes]
rs3927423	1.00[AFR][1000 genomes];0.86[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs41267923	1.00[AFR][1000 genomes];0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4515370	0.85[EUR][1000 genomes]
rs6456741	0.84[EUR][1000 genomes]
rs6456742	0.84[EUR][1000 genomes]
rs72836448	1.00[AFR][1000 genomes]
rs72836480	1.00[AFR][1000 genomes]
rs72840194	1.00[AFR][1000 genomes]
rs72843734	1.00[AFR][1000 genomes];0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs72844476	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs72844495	0.87[EUR][1000 genomes]
rs72844496	0.84[EUR][1000 genomes]
rs72845509	0.83[EUR][1000 genomes]
rs72845515	0.83[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1029920	chr6:25638507-26585842	Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Enhancers Weak transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Active TSS Genic enhancers Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	1215 gene(s)	inside rSNPs	diseases
2	nsv538162	chr6:25638507-26585842	Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Weak transcription Strong transcription Enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	1215 gene(s)	inside rSNPs	diseases
3	nsv1023453	chr6:25853830-26528250	Weak transcription Flanking Active TSS Enhancers Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	1201 gene(s)	inside rSNPs	diseases
4	nsv482836	chr6:26352883-26520964	Enhancers Flanking Active TSS Strong transcription Active TSS Genic enhancers Weak transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
5	nsv482407	chr6:26369320-26550148	Active TSS Strong transcription Flanking Active TSS Weak transcription Genic enhancers ZNF genes & repeats Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	62 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:26505600-26520600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr6:26514200-26520400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
3	chr6:26514600-26518200	Enhancers	K562	blood
4	chr6:26515600-26520400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
5	chr6:26516000-26518200	Enhancers	HepG2	liver
6	chr6:26516000-26520400	Weak transcription	Fetal Intestine Large	intestine
7	chr6:26516000-26520400	Weak transcription	Fetal Intestine Small	intestine
8	chr6:26516200-26520600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
9	chr6:26517200-26520600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
10	chr6:26517400-26517600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
11	chr6:26517400-26517800	Enhancers	A549	lung

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links