Variant report

Variant	rs7349865
Chromosome Location	chr6:1762243-1762244
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:1616799..1619206-chr6:1761673..1763182,2	MCF-7	breast:
2	chr6:1606384..1611793-chr6:1762059..1766159,7	MCF-7	breast:

Variant related genes	Relation type
ENSG00000054598	Chromatin interaction

Extended variants
information (count: 21 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs1040531	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2013003	0.81[AFR][1000 genomes]
rs2179548	0.81[AFR][1000 genomes]
rs4140587	1.00[YRI][hapmap];0.81[AFR][1000 genomes]
rs4959603	1.00[YRI][hapmap];0.81[AFR][1000 genomes]
rs4959606	0.81[AFR][1000 genomes]
rs4959607	1.00[YRI][hapmap];0.81[AFR][1000 genomes]
rs6596852	0.81[AFR][1000 genomes]
rs6907671	1.00[YRI][hapmap];0.81[AFR][1000 genomes]
rs6926560	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6931639	0.81[AFR][1000 genomes]
rs6937220	1.00[YRI][hapmap];0.81[AFR][1000 genomes]
rs7759446	0.81[AFR][1000 genomes]
rs9405508	1.00[YRI][hapmap];0.81[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv530548	chr6:1441421-2351608	Weak transcription Enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	76 gene(s)	inside rSNPs	diseases
2	nsv491607	chr6:1580681-1951526	Strong transcription Weak transcription Enhancers Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
3	nsv1020603	chr6:1697548-1921374	Weak transcription Strong transcription Active TSS Enhancers Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
4	nsv538093	chr6:1697548-1921374	Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	nsv600809	chr6:1732741-1775436	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Strong transcription Genic enhancers Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
6	nsv869043	chr6:1744238-2006788	Enhancers Weak transcription ZNF genes & repeats Strong transcription Active TSS Genic enhancers Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
7	nsv538094	chr6:1757776-1907505	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:35 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:1738400-1762400	Weak transcription	Gastric	stomach
2	chr6:1738400-1768200	Weak transcription	Primary T cells from cord blood	blood
3	chr6:1749800-1762400	Weak transcription	Colonic Mucosa	Colon
4	chr6:1749800-1779000	Weak transcription	Aorta	Aorta
5	chr6:1751200-1780400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
6	chr6:1757000-1766000	Weak transcription	Right Atrium	heart
7	chr6:1757200-1764000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
8	chr6:1757200-1766800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr6:1757200-1770600	Weak transcription	Lung	lung
10	chr6:1757600-1762800	Weak transcription	Pancreas	Pancrea
11	chr6:1758600-1771400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
12	chr6:1758800-1767800	Weak transcription	Small Intestine	intestine
13	chr6:1759400-1763000	Enhancers	Fetal Kidney	kidney
14	chr6:1760200-1763000	Enhancers	Fetal Intestine Small	intestine
15	chr6:1760400-1763000	Enhancers	Cortex derived primary cultured neurospheres	brain
16	chr6:1760800-1762800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
17	chr6:1760800-1763200	Enhancers	Brain Germinal Matrix	brain
18	chr6:1761000-1762600	Enhancers	Brain Hippocampus Middle	brain
19	chr6:1761000-1763000	Enhancers	Fetal Lung	lung
20	chr6:1761000-1768400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
21	chr6:1761200-1763000	Enhancers	Brain Inferior Temporal Lobe	brain
22	chr6:1761200-1764200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
23	chr6:1761400-1762600	Enhancers	Brain Substantia Nigra	brain
24	chr6:1761400-1762800	Enhancers	HepG2	liver
25	chr6:1761600-1762600	Enhancers	Brain Cingulate Gyrus	brain
26	chr6:1761600-1763600	Enhancers	Stomach Mucosa	stomach
27	chr6:1761600-1763800	Enhancers	Breast Myoepithelial Primary Cells	Breast
28	chr6:1761600-1767400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
29	chr6:1761800-1764200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
30	chr6:1762000-1762800	Bivalent Enhancer	Fetal Brain Male	brain
31	chr6:1762000-1763000	Flanking Active TSS	HMEC	breast
32	chr6:1762200-1762600	Active TSS	Brain Anterior Caudate	brain
33	chr6:1762200-1762800	Enhancers	Fetal Intestine Large	intestine
34	chr6:1762200-1763200	Enhancers	Duodenum Mucosa	Duodenum
35	chr6:1762200-1765000	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links