Variant report

Variant	rs11927165
Chromosome Location	chr3:93775411-93775412
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:93699718..93702695-chr3:93774813..93776691,2	K562	blood:
2	chr3:93771581..93774028-chr3:93774567..93777638,3	MCF-7	breast:
3	chr3:93771934..93779265-chr3:93779365..93783873,12	MCF-7	breast:
4	chr3:93697718..93700541-chr3:93773023..93775977,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000178694	Chromatin interaction
ENSG00000169379	Chromatin interaction
ENSG00000178700	Chromatin interaction

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs13094371	0.87[ASN][1000 genomes]
rs13095871	0.87[ASN][1000 genomes]
rs28372461	1.00[CEU][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28479320	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60331129	0.93[AMR][1000 genomes]
rs6765330	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6795524	1.00[CEU][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes]
rs6809958	0.83[EUR][1000 genomes]
rs72929719	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7615950	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7644176	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8178587	0.83[EUR][1000 genomes]
rs9810986	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9815634	0.89[EUR][1000 genomes]
rs9826711	1.00[CEU][hapmap];1.00[JPT][hapmap]
rs9869941	0.81[ASN][1000 genomes]
rs9990106	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:14 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv869241	chr3:93527675-94504491	Flanking Active TSS Weak transcription Strong transcription Enhancers Genic enhancers Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
2	nsv998173	chr3:93575084-94427403	Active TSS Weak transcription Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
3	nsv536644	chr3:93575084-94427403	Active TSS Enhancers Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
4	nsv1008711	chr3:93575284-94427264	Flanking Active TSS Enhancers Active TSS Weak transcription Strong transcription Genic enhancers ZNF genes & repeats 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	23 gene(s)	inside rSNPs	diseases
5	nsv536646	chr3:93575284-94427264	Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Enhancers Strong transcription Bivalent/Poised TSS 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	23 gene(s)	inside rSNPs	diseases
6	nsv491829	chr3:93575285-94427263	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
7	esv1795060	chr3:93602038-93848525	Weak transcription Strong transcription Active TSS Flanking Active TSS Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	n/a
8	esv1791740	chr3:93602927-93849247	Strong transcription Weak transcription Active TSS Enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	n/a
9	esv2755326	chr3:93605126-93882750	Genic enhancers Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	n/a
10	nsv1013107	chr3:93654100-94102212	Enhancers Weak transcription Active TSS Strong transcription Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
11	nsv536648	chr3:93654100-94102212	Weak transcription Active TSS Strong transcription Enhancers ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
12	nsv1004176	chr3:93654100-94502551	Active TSS Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
13	nsv590987	chr3:93708820-93779664	Active TSS Enhancers Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	n/a
14	nsv967185	chr3:93771419-93794318	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:96 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:93708400-93780800	Weak transcription	K562	blood
2	chr3:93723600-93780800	Weak transcription	Fetal Lung	lung
3	chr3:93723600-93780800	Weak transcription	HSMMtube	muscle
4	chr3:93726200-93780800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr3:93740600-93780800	Weak transcription	NHDF-Ad	bronchial
6	chr3:93743600-93780800	Weak transcription	Aorta	Aorta
7	chr3:93748800-93777600	Weak transcription	A549	lung
8	chr3:93751000-93780600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
9	chr3:93753200-93778000	Weak transcription	Stomach Smooth Muscle	stomach
10	chr3:93753800-93780800	Weak transcription	HUVEC	blood vessel
11	chr3:93754200-93781000	Weak transcription	Small Intestine	intestine
12	chr3:93754400-93780800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
13	chr3:93755800-93780800	Weak transcription	Primary B cells from cord blood	blood
14	chr3:93756200-93778800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
15	chr3:93756200-93780600	Weak transcription	GM12878-XiMat	blood
16	chr3:93756200-93780800	Weak transcription	Brain Cingulate Gyrus	brain
17	chr3:93756200-93780800	Weak transcription	Brain Inferior Temporal Lobe	brain
18	chr3:93756200-93780800	Weak transcription	NHEK	skin
19	chr3:93756200-93780800	Weak transcription	Osteobl	bone
20	chr3:93756600-93778600	Weak transcription	Primary T helper cells PMA-I stimulated	--
21	chr3:93756600-93780800	Weak transcription	Colon Smooth Muscle	Colon
22	chr3:93757000-93780800	Weak transcription	HMEC	breast
23	chr3:93760800-93777400	Weak transcription	Primary T cells from cord blood	blood
24	chr3:93761400-93780800	Weak transcription	Brain Anterior Caudate	brain
25	chr3:93761800-93777800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
26	chr3:93761800-93778000	Weak transcription	Primary T cells fromperipheralblood	blood
27	chr3:93762000-93780800	Weak transcription	Skeletal Muscle Male	skeletal muscle
28	chr3:93762000-93781000	Weak transcription	Psoas Muscle	Psoas
29	chr3:93762600-93780800	Weak transcription	HSMM	muscle
30	chr3:93762800-93777800	Weak transcription	Dnd41	blood
31	chr3:93763600-93777600	Weak transcription	Duodenum Smooth Muscle	Duodenum
32	chr3:93763600-93777600	Weak transcription	Fetal Thymus	thymus
33	chr3:93763600-93777800	Weak transcription	Fetal Muscle Trunk	muscle
34	chr3:93763600-93778000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
35	chr3:93763600-93778000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
36	chr3:93763600-93780800	Weak transcription	Brain Germinal Matrix	brain
37	chr3:93763600-93780800	Weak transcription	Fetal Brain Female	brain
38	chr3:93763600-93780800	Weak transcription	Right Ventricle	heart
39	chr3:93763600-93781000	Weak transcription	Esophagus	oesophagus
40	chr3:93763600-93781000	Weak transcription	Sigmoid Colon	Sigmoid Colon
41	chr3:93763600-93781400	Weak transcription	Gastric	stomach
42	chr3:93763800-93777600	Weak transcription	Fetal Muscle Leg	muscle
43	chr3:93763800-93778000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
44	chr3:93763800-93778000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
45	chr3:93763800-93778000	Weak transcription	Lung	lung
46	chr3:93763800-93780800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
47	chr3:93763800-93780800	Weak transcription	Cortex derived primary cultured neurospheres	brain
48	chr3:93763800-93780800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
49	chr3:93763800-93780800	Weak transcription	Fetal Intestine Large	intestine
50	chr3:93763800-93781000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell

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