Variant report

Variant	rs62567704
Chromosome Location	chr9:110014125-110014126
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:110012891..110014822-chr9:110023736..110026167,2	MCF-7	breast:
2	chr9:110013982..110015486-chr9:110023325..110025849,2	K562	blood:
3	chr9:110009648..110012591-chr9:110013011..110015349,2	K562	blood:
4	chr9:110007276..110009572-chr9:110012956..110014515,2	K562	blood:
5	chr9:110009341..110011173-chr9:110013824..110016663,3	MCF-7	breast:
6	chr9:110011669..110017049-chr9:110043880..110047775,8	MCF-7	breast:

Variant related genes	Relation type
ENSG00000119318	Chromatin interaction

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs10978789	0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10978793	0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11573631	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11573652	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11573655	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs11573700	0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12001235	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12001425	0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12005299	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12005522	0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs16912372	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs17724694	0.90[EUR][1000 genomes]
rs56091145	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62567660	0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs62567661	0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs62567691	0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs62567693	0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs62567694	0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs62567696	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62567738	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73668766	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73668780	0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7859324	0.94[EUR][1000 genomes];0.91[ASN][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	nsv869351	chr9:109593212-110191170	Active TSS Genic enhancers Weak transcription Strong transcription Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
2	nsv530948	chr9:109760752-110413602	Weak transcription Flanking Active TSS Enhancers Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	57 gene(s)	inside rSNPs	diseases
3	nsv831682	chr9:109937181-110075453	Enhancers Flanking Active TSS Weak transcription Genic enhancers Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
4	nsv893698	chr9:109998563-110052660	Enhancers Flanking Active TSS Active TSS Weak transcription Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
5	nsv508560	chr9:110006490-110060539	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:49 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:110007000-110022600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr9:110008800-110014200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr9:110008800-110014400	Weak transcription	Fetal Kidney	kidney
4	chr9:110009800-110015400	Enhancers	Fetal Muscle Leg	muscle
5	chr9:110010000-110014200	Enhancers	HSMMtube	muscle
6	chr9:110011200-110014200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr9:110011400-110014600	Weak transcription	Placenta Amnion	Placenta Amnion
8	chr9:110011800-110014200	Weak transcription	Stomach Smooth Muscle	stomach
9	chr9:110012000-110014200	Enhancers	HepG2	liver
10	chr9:110012200-110014200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
11	chr9:110012400-110014200	Weak transcription	Liver	Liver
12	chr9:110012400-110014200	Weak transcription	A549	lung
13	chr9:110012400-110014400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr9:110012400-110014400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
15	chr9:110012400-110022600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
16	chr9:110013000-110014200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
17	chr9:110013000-110014400	Enhancers	NHLF	lung
18	chr9:110013200-110014600	Enhancers	Fetal Lung	lung
19	chr9:110013200-110015000	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
20	chr9:110013400-110014200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
21	chr9:110013400-110015000	Enhancers	HSMM	muscle
22	chr9:110013400-110015400	Enhancers	Placenta	Placenta
23	chr9:110013600-110014200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
24	chr9:110013600-110014200	Enhancers	Pancreas	Pancrea
25	chr9:110013600-110014200	Enhancers	Skeletal Muscle Female	skeletal muscle
26	chr9:110013600-110014200	Enhancers	NH-A	brain
27	chr9:110013600-110014200	Enhancers	Osteobl	bone
28	chr9:110013600-110014400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
29	chr9:110013600-110014600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
30	chr9:110013600-110014600	Enhancers	Left Ventricle	heart
31	chr9:110013600-110014600	Enhancers	Ovary	ovary
32	chr9:110013600-110014600	Enhancers	Psoas Muscle	Psoas
33	chr9:110013600-110014800	Enhancers	HMEC	breast
34	chr9:110013600-110015000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
35	chr9:110013600-110015000	Enhancers	Muscle Satellite Cultured Cells	--
36	chr9:110013600-110015000	Enhancers	Skeletal Muscle Male	skeletal muscle
37	chr9:110013600-110015400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
38	chr9:110013800-110014200	Enhancers	Fetal Heart	heart
39	chr9:110013800-110014600	Enhancers	NHEK	skin
40	chr9:110013800-110014800	Enhancers	Breast Myoepithelial Primary Cells	Breast
41	chr9:110013800-110014800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
42	chr9:110013800-110014800	Enhancers	Adipose Nuclei	Adipose
43	chr9:110013800-110014800	Enhancers	Colon Smooth Muscle	Colon
44	chr9:110013800-110014800	Enhancers	Rectal Smooth Muscle	rectum
45	chr9:110013800-110014800	Enhancers	K562	blood
46	chr9:110014000-110014200	Weak transcription	Aorta	Aorta
47	chr9:110014000-110014200	Enhancers	NHDF-Ad	bronchial
48	chr9:110014000-110014800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
49	chr9:110014000-110014800	Enhancers	Fetal Adrenal Gland	Adrenal Gland

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links