Variant report

Variant	rs56223728
Chromosome Location	chr6:160935112-160935113
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	FOXA1	chr6:160934903-160935324	HepG2	liver:	n/a	n/a
2	FOXA1	chr6:160934939-160935186	HepG2	liver:	n/a	n/a
3	SETDB1	chr6:160934961-160935330	U2OS	brain:	n/a	n/a
4	FOXA2	chr6:160934911-160935346	HepG2	liver:	n/a	n/a
5	FOS	chr6:160934967-160935113	MCF10A-Er-Src	breast:	n/a	n/a
6	FOXA1	chr6:160934883-160935263	HepG2	liver:	n/a	n/a

Variant related genes	Relation type
LPAL2	TF binding region

Extended variants
information (count: 92 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:71)

rs_ID	r²[population]
rs41264332	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs41265922	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs41265942	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs41266346	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs41266348	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs41266360	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs41266362	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs41266369	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs41266383	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs55771312	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs55808219	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56076443	0.83[AMR][1000 genomes]
rs56304956	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56411319	0.83[AMR][1000 genomes]
rs56787824	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57018537	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57720189	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58349125	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58646989	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58731916	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58787790	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59222947	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59465384	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59557736	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60331973	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60452884	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60754668	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60768108	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61643720	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73784215	0.83[AMR][1000 genomes]
rs73784216	0.83[AMR][1000 genomes]
rs73784226	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73784228	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73784230	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73784231	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73784232	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73784233	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73784235	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73784236	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73784237	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73784241	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73784242	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73784243	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73784244	1.00[AFR][1000 genomes]
rs73784245	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73784246	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73784247	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73784248	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73784249	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73784252	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73784253	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73784255	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73784256	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73784258	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73784259	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73784261	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73784262	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73784264	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73784265	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73784266	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73784267	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73784268	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73784269	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73784270	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73784271	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73784277	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73784278	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73784279	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73784280	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73784281	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73784285	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:21 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2758089	chr6:160372244-161234665	Weak transcription Strong transcription Active TSS Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
2	esv2759484	chr6:160372244-161234665	Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
3	esv35098	chr6:160422589-161070870	Strong transcription Weak transcription Enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Active TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
4	esv2757197	chr6:160432331-161070870	Weak transcription Genic enhancers Active TSS Enhancers Strong transcription Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
5	nsv818463	chr6:160435569-161025547	Weak transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
6	nsv1030171	chr6:160648469-161091864	Weak transcription Flanking Active TSS Enhancers Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
7	nsv886809	chr6:160670494-160979275	Flanking Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Active TSS Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
8	nsv886811	chr6:160700769-161070990	Flanking Bivalent TSS/Enh Bivalent/Poised TSS Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
9	nsv886812	chr6:160706661-161024848	Enhancers Bivalent/Poised TSS Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
10	esv6519	chr6:160877633-160956593	Weak transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
11	nsv886813	chr6:160877640-160940120	Strong transcription ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
12	esv3378121	chr6:160877757-160956624	Active TSS Strong transcription Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
13	esv3475083	chr6:160877837-160956581	Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
14	esv3475084	chr6:160877837-160956581	Bivalent Enhancer Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Weak transcription Flanking Bivalent TSS/Enh Active TSS Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
15	esv3351253	chr6:160896879-160975729	Weak transcription Active TSS Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
16	nsv525990	chr6:160903622-160970963	Flanking Active TSS Active TSS Enhancers Strong transcription Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
17	esv1801254	chr6:160932981-161079798	Flanking Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
18	esv1846296	chr6:160932981-161079798	Bivalent Enhancer Active TSS Enhancers Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
19	nsv427770	chr6:160932981-161079798	Enhancers Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
20	esv3474350	chr6:160934480-160943642	Flanking Active TSS Bivalent/Poised TSS Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
21	esv3474351	chr6:160934480-160943642	Active TSS Flanking Active TSS Bivalent Enhancer Enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Weak transcription Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	3 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	chr6:160933600-160940400	Weak transcription	Liver	Liver
2	chr6:160934400-160935200	ZNF genes & repeats	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr6:160934400-160935200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
4	chr6:160934600-160935200	Enhancers	HUES64 Cell Line	embryonic stem cell
5	chr6:160934600-160941000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr6:160934800-160935200	Enhancers	HepG2	liver

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