Variant report

Variant	rs11083424
Chromosome Location	chr19:37993637-37993638
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr19:37992616..37995600-chr19:37995736..37998672,5	MCF-7	breast:
2	chr19:37991013..37994559-chr19:37994828..37997998,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000266916	Chromatin interaction
ENSG00000188227	Chromatin interaction
ENSG00000267115	Chromatin interaction

Extended variants
information (count: 44 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs10153500	0.84[ASW][hapmap];1.00[CEU][hapmap];0.89[MEX][hapmap];0.84[YRI][hapmap];0.82[AMR][1000 genomes]
rs11879149	0.82[AMR][1000 genomes]
rs11880604	0.82[AMR][1000 genomes]
rs2112921	1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2305115	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.93[EUR][1000 genomes]
rs2921563	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.93[EUR][1000 genomes]
rs2927744	0.84[YRI][hapmap]
rs2972597	0.93[EUR][1000 genomes]
rs2972598	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.88[LWK][hapmap];0.83[MKK][hapmap];1.00[TSI][hapmap];0.93[EUR][1000 genomes]
rs3745763	1.00[CEU][hapmap];1.00[JPT][hapmap]
rs45505797	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4802069	0.84[YRI][hapmap]
rs56743641	0.93[EUR][1000 genomes]
rs56917663	1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs59957425	0.93[EUR][1000 genomes]
rs60159855	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs60686304	0.82[AMR][1000 genomes]
rs61290534	0.87[EUR][1000 genomes]
rs62108260	0.82[AMR][1000 genomes]
rs62108262	0.82[AMR][1000 genomes]
rs62108289	0.82[AMR][1000 genomes]
rs62111488	0.82[AMR][1000 genomes]
rs62111490	0.82[AMR][1000 genomes]
rs6508718	1.00[CEU][hapmap];0.87[EUR][1000 genomes]
rs6508720	0.86[EUR][1000 genomes]
rs7245981	1.00[CEU][hapmap];0.84[YRI][hapmap]
rs7247654	0.93[EUR][1000 genomes]
rs7254780	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7255938	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7258992	0.82[AMR][1000 genomes]
rs7259029	0.82[AMR][1000 genomes]
rs7259321	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7259717	0.82[AMR][1000 genomes]
rs73930999	0.82[AFR][1000 genomes];0.96[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs8100308	0.97[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs8101991	1.00[CEU][hapmap];0.82[AMR][1000 genomes]
rs8109806	1.00[CHB][hapmap];0.92[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.83[MKK][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs8110164	1.00[CEU][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv918028	chr19:37020645-38014526	Weak transcription ZNF genes & repeats Active TSS Enhancers Flanking Active TSS Strong transcription 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	73 gene(s)	inside rSNPs	diseases
2	esv2757695	chr19:37794850-38051606	Genic enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
3	esv2758759	chr19:37794850-38051606	ZNF genes & repeats Weak transcription Strong transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Enhancers Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
4	nsv833819	chr19:37899501-38051599	ZNF genes & repeats Active TSS Weak transcription Strong transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
5	nsv1056753	chr19:37963714-38015943	Weak transcription Active TSS Strong transcription ZNF genes & repeats Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
6	nsv579468	chr19:37977609-38293487	ZNF genes & repeats Strong transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Active TSS Weak transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:37984800-37996400	Weak transcription	Fetal Heart	heart
2	chr19:37989000-37996200	Weak transcription	Brain Cingulate Gyrus	brain
3	chr19:37989000-37996800	Weak transcription	Left Ventricle	heart
4	chr19:37989000-37996800	Weak transcription	Ovary	ovary
5	chr19:37989200-37996400	Weak transcription	Brain Inferior Temporal Lobe	brain
6	chr19:37991200-37996800	Weak transcription	Fetal Muscle Trunk	muscle
7	chr19:37991400-37996000	Weak transcription	Brain Hippocampus Middle	brain
8	chr19:37992000-37996400	Weak transcription	Brain Anterior Caudate	brain
9	chr19:37992000-37996600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
10	chr19:37992200-37996400	Weak transcription	Fetal Brain Female	brain
11	chr19:37992200-37996600	Weak transcription	Aorta	Aorta
12	chr19:37992400-37995000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
13	chr19:37992600-37994800	Weak transcription	Fetal Muscle Leg	muscle
14	chr19:37992600-37995000	Weak transcription	Fetal Stomach	stomach
15	chr19:37992800-37996400	Weak transcription	Fetal Kidney	kidney
16	chr19:37993000-37996800	Weak transcription	Right Atrium	heart
17	chr19:37993200-37996200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
18	chr19:37993200-37996200	Weak transcription	Fetal Intestine Large	intestine
19	chr19:37993200-37996800	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
20	chr19:37993400-37994000	ZNF genes & repeats	Skeletal Muscle Female	skeletal muscle
21	chr19:37993400-37994800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
22	chr19:37993400-37995600	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
23	chr19:37993400-37996400	Weak transcription	Brain Germinal Matrix	brain
24	chr19:37993600-37993800	ZNF genes & repeats	Primary B cells from cord blood	blood
25	chr19:37993600-37996200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
26	chr19:37993600-37996200	Weak transcription	Primary T cells from cord blood	blood
27	chr19:37993600-37996400	Weak transcription	Skeletal Muscle Male	skeletal muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links