Variant report

Variant	rs11725260
Chromosome Location	chr4:148651446-148651447
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	CTCF	chr4:148651380-148651530	BJ	skin:	n/a	n/a
2	CTCF	chr4:148651380-148651530	GM12873	blood:	n/a	n/a
3	CTCF	chr4:148651360-148651510	HPF	lung:	n/a	n/a
4	CTCF	chr4:148651300-148651450	GM12865	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr4:148634430..148636083-chr4:148650426..148652748,2	MCF-7	breast:
2	chr4:148602322..148606656-chr4:148649854..148654389,6	MCF-7	breast:
3	chr4:148646288..148648012-chr4:148649109..148651938,2	K562	blood:

Variant related genes	Relation type
ARHGAP10	TF binding region
ENSG00000164169	Chromatin interaction

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs11099666	0.80[ASN][1000 genomes]
rs11099667	0.95[ASN][1000 genomes]
rs11726957	0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12502667	0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12646582	0.88[ASN][1000 genomes]
rs13109759	0.92[ASN][1000 genomes]
rs13128620	0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13144139	0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1969102	0.87[EUR][1000 genomes]
rs36052332	0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4835093	0.94[EUR][1000 genomes]
rs4835446	0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4835448	0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs56224422	0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6535556	0.88[EUR][1000 genomes]
rs6836509	0.91[EUR][1000 genomes]
rs72951430	0.85[EUR][1000 genomes]
rs72953456	0.83[EUR][1000 genomes]
rs7661297	0.81[EUR][1000 genomes]
rs7666807	0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs905606	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs905607	0.81[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	nsv1028958	chr4:148377752-148793485	Weak transcription Strong transcription Enhancers Active TSS Genic enhancers ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
2	nsv498083	chr4:148519825-148917583	Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	20 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:28 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:148644800-148652400	Weak transcription	Duodenum Mucosa	Duodenum
2	chr4:148645000-148652000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
3	chr4:148645000-148652200	Weak transcription	Fetal Kidney	kidney
4	chr4:148645000-148652400	Weak transcription	Liver	Liver
5	chr4:148646000-148652200	Weak transcription	Adipose Nuclei	Adipose
6	chr4:148646200-148651600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
7	chr4:148646200-148652200	Weak transcription	GM12878-XiMat	blood
8	chr4:148646400-148652400	Weak transcription	A549	lung
9	chr4:148648600-148652200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
10	chr4:148649000-148652200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
11	chr4:148649000-148652400	Weak transcription	Placenta Amnion	Placenta Amnion
12	chr4:148649200-148652000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
13	chr4:148649200-148652200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
14	chr4:148649200-148652400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
15	chr4:148649200-148652400	Weak transcription	NHDF-Ad	bronchial
16	chr4:148649400-148652200	Weak transcription	NHEK	skin
17	chr4:148649400-148652400	Weak transcription	HMEC	breast
18	chr4:148649600-148652200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
19	chr4:148651200-148651600	Bivalent Enhancer	HUES6 Cell Line	embryonic stem cell
20	chr4:148651200-148651600	Bivalent Enhancer	HUES64 Cell Line	embryonic stem cell
21	chr4:148651200-148651600	Bivalent Enhancer	iPS-20b Cell Line	embryonic stem cell
22	chr4:148651200-148651800	Bivalent Enhancer	HUES48 Cell Line	embryonic stem cell
23	chr4:148651400-148651600	Flanking Bivalent TSS/Enh	iPS-15b Cell Line	embryonic stem cell
24	chr4:148651400-148651600	Bivalent Enhancer	iPS-18 Cell Line	embryonic stem cell
25	chr4:148651400-148652200	Bivalent Enhancer	H1 Cell Line	embryonic stem cell
26	chr4:148651400-148652200	Bivalent Enhancer	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
27	chr4:148651400-148652200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
28	chr4:148651400-148652200	Enhancers	HepG2	liver

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