Variant report

Variant	rs4619178
Chromosome Location	chr11:86406042-86406043
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr11:86402633..86405322-chr11:86405764..86408374,2	MCF-7	breast:
2	chr11:86405344..86406916-chr11:86511326..86514106,3	MCF-7	breast:
3	chr11:86401125..86402714-chr11:86404169..86406259,2	K562	blood:
4	chr11:86404739..86407323-chr11:86454974..86456802,2	MCF-7	breast:
5	chr11:86404850..86407164-chr11:86508188..86511166,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000150687	Chromatin interaction

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs10898526	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11234738	0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11234739	0.95[ASN][1000 genomes]
rs11234741	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11234743	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11234745	1.00[ASN][1000 genomes]
rs11234746	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12574672	0.84[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs12789412	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2433412	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2433413	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2433414	0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2433415	0.99[ASN][1000 genomes]
rs543336	0.95[ASN][1000 genomes]
rs544199	0.93[ASN][1000 genomes]
rs575273	0.95[ASN][1000 genomes]
rs575468	0.95[ASN][1000 genomes]
rs600242	0.94[ASN][1000 genomes]
rs602498	0.91[ASN][1000 genomes]
rs66878934	0.82[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs67655324	0.82[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs72961766	0.84[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs72961771	0.94[ASN][1000 genomes]
rs746491	0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7933920	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7939319	0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7948924	0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs949348	0.96[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	nsv1044081	chr11:86133641-86868560	Bivalent/Poised TSS Weak transcription Active TSS Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats 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	40 gene(s)	inside rSNPs	diseases
2	nsv541118	chr11:86133641-86868560	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
3	nsv555665	chr11:86230898-86417553	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	nsv1055071	chr11:86301240-86465465	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
5	nsv428263	chr11:86357990-86508480	Enhancers Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:45 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:86385200-86411400	Weak transcription	Pancreatic Islets	Pancreatic Islet
2	chr11:86386600-86431000	Weak transcription	Primary hematopoietic stem cells	blood
3	chr11:86388000-86409600	Weak transcription	Sigmoid Colon	Sigmoid Colon
4	chr11:86393000-86406800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
5	chr11:86399600-86415800	Weak transcription	Fetal Heart	heart
6	chr11:86399800-86406400	Weak transcription	HUVEC	blood vessel
7	chr11:86399800-86406600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
8	chr11:86400600-86406600	Weak transcription	Aorta	Aorta
9	chr11:86400600-86406600	Weak transcription	Left Ventricle	heart
10	chr11:86400600-86406600	Weak transcription	Right Ventricle	heart
11	chr11:86400600-86410800	Weak transcription	Psoas Muscle	Psoas
12	chr11:86400600-86414800	Weak transcription	Ovary	ovary
13	chr11:86402800-86407600	Enhancers	Placenta Amnion	Placenta Amnion
14	chr11:86402800-86408000	Enhancers	HSMM	muscle
15	chr11:86402800-86408600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
16	chr11:86402800-86410600	Enhancers	NHDF-Ad	bronchial
17	chr11:86403000-86406600	Enhancers	Muscle Satellite Cultured Cells	--
18	chr11:86403000-86406800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
19	chr11:86403000-86408000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
20	chr11:86403200-86408000	Enhancers	Osteobl	bone
21	chr11:86403400-86408400	Enhancers	Breast Myoepithelial Primary Cells	Breast
22	chr11:86404400-86406200	Weak transcription	NHEK	skin
23	chr11:86404400-86406400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
24	chr11:86404400-86406400	Weak transcription	NH-A	brain
25	chr11:86404800-86406400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
26	chr11:86404800-86408400	Enhancers	HMEC	breast
27	chr11:86405000-86406800	Enhancers	A549	lung
28	chr11:86405000-86407000	Enhancers	HSMMtube	muscle
29	chr11:86405000-86408600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
30	chr11:86405200-86406400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
31	chr11:86405200-86407800	Enhancers	Fetal Lung	lung
32	chr11:86405400-86406400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
33	chr11:86405400-86406600	Enhancers	Hela-S3	cervix
34	chr11:86405400-86408400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
35	chr11:86405600-86407000	Weak transcription	Adipose Nuclei	Adipose
36	chr11:86405600-86407400	Weak transcription	Rectal Smooth Muscle	rectum
37	chr11:86405600-86411200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
38	chr11:86405800-86406800	Weak transcription	Stomach Smooth Muscle	stomach
39	chr11:86405800-86408400	Enhancers	NHLF	lung
40	chr11:86406000-86406200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
41	chr11:86406000-86406400	Weak transcription	Colon Smooth Muscle	Colon
42	chr11:86406000-86407800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
43	chr11:86406000-86408000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
44	chr11:86406000-86408200	Enhancers	Skeletal Muscle Female	skeletal muscle
45	chr11:86406000-86408600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links