Variant report

Variant	rs7125909
Chromosome Location	chr11:27015484-27015485
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	MYC	chr11:27015444-27015692	MCF10A-Er-Src	breast:	n/a	n/a
2	STAT3	chr11:27015390-27015569	MCF10A-Er-Src	breast:	n/a	n/a
3	FOS	chr11:27015433-27015690	MCF10A-Er-Src	breast:	n/a	n/a
4	CTCF	chr11:27015480-27015630	AG04450	lung:	n/a	n/a
5	CEBPB	chr11:27015433-27015769	IMR90	lung:	n/a	n/a
6	STAT3	chr11:27015392-27015712	MCF10A-Er-Src	breast:	n/a	n/a
7	MYC	chr11:27015366-27015630	MCF10A-Er-Src	breast:	n/a	n/a
8	CEBPB	chr11:27015459-27015719	Hela-S3	cervix:	n/a	n/a
9	FOS	chr11:27015366-27015736	MCF10A-Er-Src	breast:	n/a	n/a

Variant related genes	Relation type
FIBIN	TF binding region

Extended variants
information (count: 42 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs10835087	0.84[ASN][1000 genomes]
rs10835088	0.91[ASN][1000 genomes]
rs10835090	0.91[ASN][1000 genomes]
rs10835091	0.88[CEU][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs10835092	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11822375	0.91[ASN][1000 genomes]
rs12275693	0.88[CEU][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.91[ASN][1000 genomes]
rs12279228	0.86[ASN][1000 genomes]
rs12280405	0.91[ASN][1000 genomes]
rs12281076	0.86[ASN][1000 genomes]
rs12282845	1.00[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12284935	1.00[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12285735	0.86[ASN][1000 genomes]
rs12286240	1.00[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12286282	1.00[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12293478	0.91[ASN][1000 genomes]
rs12421183	0.88[CEU][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs12576182	0.91[ASN][1000 genomes]
rs12577937	0.91[ASN][1000 genomes]
rs12578018	0.91[ASN][1000 genomes]
rs1445333	0.86[ASN][1000 genomes]
rs34681631	0.84[ASN][1000 genomes]
rs36102095	0.91[ASN][1000 genomes]
rs59417854	0.86[ASN][1000 genomes]
rs59447780	0.86[ASN][1000 genomes]
rs59654892	0.86[ASN][1000 genomes]
rs7106676	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7107282	0.86[ASN][1000 genomes]
rs7111860	0.88[CEU][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs7940518	0.89[ASN][1000 genomes]
rs959042	0.86[ASN][1000 genomes]
rs959043	0.86[ASN][1000 genomes]
rs959044	0.86[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv916187	chr11:26576875-27328603	Flanking Active TSS Weak transcription Enhancers Active TSS Bivalent/Poised TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
2	nsv897146	chr11:26913936-27019331	Enhancers Bivalent/Poised TSS Weak transcription Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	nsv949332	chr11:26935972-27223492	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	nsv897147	chr11:26983363-27258899	Enhancers Flanking Active TSS Weak transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
5	nsv1040964	chr11:26998213-27223388	Weak transcription Enhancers Bivalent Enhancer Bivalent/Poised TSS Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
6	nsv540975	chr11:26998213-27223388	Enhancers Bivalent Enhancer Weak transcription Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
7	nsv949575	chr11:27005687-27233359	Weak transcription Enhancers Strong transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
8	nsv533052	chr11:27006061-27225374	Active TSS Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
9	nsv553912	chr11:27014032-27240951	Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:71 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:27013400-27015600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr11:27014200-27015600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr11:27014600-27020000	Active TSS	Aorta	Aorta
4	chr11:27014800-27017600	Active TSS	Fetal Kidney	kidney
5	chr11:27014800-27017600	Active TSS	Rectal Mucosa Donor 29	rectum
6	chr11:27015000-27015600	Flanking Active TSS	NHDF-Ad	bronchial
7	chr11:27015000-27015800	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
8	chr11:27015000-27015800	Active TSS	Brain Inferior Temporal Lobe	brain
9	chr11:27015000-27015800	Active TSS	Skeletal Muscle Female	skeletal muscle
10	chr11:27015000-27017600	Active TSS	Brain Substantia Nigra	brain
11	chr11:27015000-27019000	Active TSS	Stomach Smooth Muscle	stomach
12	chr11:27015200-27015600	Flanking Active TSS	Muscle Satellite Cultured Cells	--
13	chr11:27015200-27015600	Active TSS	Fetal Brain Male	brain
14	chr11:27015200-27015600	Flanking Active TSS	Osteobl	bone
15	chr11:27015200-27015800	Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
16	chr11:27015200-27015800	Active TSS	Brain Hippocampus Middle	brain
17	chr11:27015200-27015800	Active TSS	Fetal Muscle Leg	muscle
18	chr11:27015200-27015800	Active TSS	HSMMtube	muscle
19	chr11:27015200-27016000	Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
20	chr11:27015200-27016400	Active TSS	Breast Myoepithelial Primary Cells	Breast
21	chr11:27015200-27016800	Flanking Active TSS	Cortex derived primary cultured neurospheres	brain
22	chr11:27015200-27017400	Active TSS	Skeletal Muscle Male	skeletal muscle
23	chr11:27015200-27017600	Active TSS	Brain Anterior Caudate	brain
24	chr11:27015200-27018400	Active TSS	Right Atrium	heart
25	chr11:27015200-27019000	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
26	chr11:27015200-27019200	Active TSS	Duodenum Smooth Muscle	Duodenum
27	chr11:27015400-27015600	Active TSS	H1 Cell Line	embryonic stem cell
28	chr11:27015400-27015600	Flanking Bivalent TSS/Enh	HUES48 Cell Line	embryonic stem cell
29	chr11:27015400-27015600	Flanking Bivalent TSS/Enh	iPS-15b Cell Line	embryonic stem cell
30	chr11:27015400-27015600	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
31	chr11:27015400-27015600	Active TSS	Fetal Adrenal Gland	Adrenal Gland
32	chr11:27015400-27015600	Flanking Bivalent TSS/Enh	Fetal Intestine Small	intestine
33	chr11:27015400-27015600	Active TSS	Fetal Lung	lung
34	chr11:27015400-27015600	Enhancers	Pancreas	Pancrea
35	chr11:27015400-27015600	Active TSS	Placenta Amnion	Placenta Amnion
36	chr11:27015400-27015600	Flanking Active TSS	HSMM	muscle
37	chr11:27015400-27015600	Flanking Active TSS	NH-A	brain
38	chr11:27015400-27015600	Flanking Active TSS	NHEK	skin
39	chr11:27015400-27015800	Active TSS	ES-I3 Cell Line	embryonic stem cell
40	chr11:27015400-27015800	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
41	chr11:27015400-27015800	Active TSS	iPS-18 Cell Line	embryonic stem cell
42	chr11:27015400-27015800	Active TSS	iPS-20b Cell Line	embryonic stem cell
43	chr11:27015400-27015800	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
44	chr11:27015400-27015800	Active TSS	Adipose Nuclei	Adipose
45	chr11:27015400-27015800	Active TSS	Brain Germinal Matrix	brain
46	chr11:27015400-27015800	Active TSS	Fetal Brain Female	brain
47	chr11:27015400-27015800	Active TSS	Fetal Muscle Trunk	muscle
48	chr11:27015400-27015800	Active TSS	Placenta	Placenta
49	chr11:27015400-27015800	Active TSS	Fetal Stomach	stomach
50	chr11:27015400-27016000	Active TSS	HUES64 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links