Variant report

Variant	rs73388146
Chromosome Location	chr6:25170668-25170669
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr6:25170615-25170678	MCF-7	breast:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr6:25164710..25167497-chr6:25168984..25171252,3	K562	blood:
2	chr6:25164181..25167866-chr6:25169101..25173283,5	MCF-7	breast:
3	chr20:46557528..46559114-chr6:25169864..25172495,2	MCF-7	breast:

Variant related genes	Relation type
CMAHP	TF binding region
ENSG00000168405	Chromatin interaction

Extended variants
information (count: 8 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:1)

rs_ID	r²[population]
rs2394371	0.83[EUR][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	nsv1023989	chr6:24930362-25285679	Weak transcription Active TSS Enhancers Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	43 gene(s)	inside rSNPs	diseases
2	nsv830611	chr6:25039374-25199112	Flanking Active TSS Enhancers Strong transcription Weak transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
3	nsv1025694	chr6:25136860-25309450	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
4	nsv1020774	chr6:25154152-25285679	Enhancers Flanking Active TSS Bivalent/Poised TSS Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
5	nsv538161	chr6:25154152-25285679	Active TSS Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
6	nsv462663	chr6:25156197-25234884	Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS ZNF genes & repeats Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
7	nsv601167	chr6:25156197-25234884	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:25164800-25173800	Weak transcription	Colon Smooth Muscle	Colon
2	chr6:25165600-25177000	Enhancers	Primary monocytes fromperipheralblood	blood
3	chr6:25166000-25171800	Enhancers	Primary neutrophils fromperipheralblood	blood
4	chr6:25166400-25174000	Weak transcription	Fetal Lung	lung
5	chr6:25167000-25171400	Weak transcription	NHEK	skin
6	chr6:25167000-25173200	Weak transcription	Fetal Intestine Large	intestine
7	chr6:25167000-25173200	Weak transcription	Rectal Mucosa Donor 29	rectum
8	chr6:25167000-25174400	Weak transcription	Aorta	Aorta
9	chr6:25167000-25177400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
10	chr6:25167600-25175400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
11	chr6:25167800-25171000	Enhancers	Fetal Thymus	thymus
12	chr6:25167800-25172000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
13	chr6:25168400-25170800	Enhancers	Dnd41	blood
14	chr6:25168800-25177000	Enhancers	Placenta	Placenta
15	chr6:25169000-25173200	Weak transcription	Fetal Intestine Small	intestine
16	chr6:25169000-25177000	Enhancers	Placenta Amnion	Placenta Amnion
17	chr6:25169200-25171200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
18	chr6:25169200-25171800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
19	chr6:25169200-25172200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
20	chr6:25169200-25173400	Enhancers	Monocytes-CD14+_RO01746	blood
21	chr6:25169200-25177400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
22	chr6:25169400-25171200	Enhancers	Osteobl	bone
23	chr6:25169400-25171400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
24	chr6:25169600-25171800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
25	chr6:25169800-25170800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
26	chr6:25169800-25171000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
27	chr6:25169800-25171800	Enhancers	Liver	Liver
28	chr6:25169800-25172000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
29	chr6:25169800-25173400	Enhancers	HSMMtube	muscle
30	chr6:25170000-25170800	Enhancers	Ovary	ovary
31	chr6:25170000-25170800	Enhancers	Thymus	Thymus
32	chr6:25170000-25177400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
33	chr6:25170200-25171200	Weak transcription	NHDF-Ad	bronchial
34	chr6:25170200-25171800	Enhancers	Stomach Mucosa	stomach
35	chr6:25170200-25172600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
36	chr6:25170200-25173200	Weak transcription	Primary hematopoietic stem cells	blood
37	chr6:25170200-25173600	Weak transcription	Rectal Mucosa Donor 31	rectum
38	chr6:25170200-25174000	Weak transcription	Rectal Smooth Muscle	rectum
39	chr6:25170400-25170800	Enhancers	Lung	lung
40	chr6:25170400-25170800	Enhancers	Pancreas	Pancrea
41	chr6:25170400-25171000	Enhancers	Gastric	stomach
42	chr6:25170400-25172000	Enhancers	Esophagus	oesophagus
43	chr6:25170400-25177000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
44	chr6:25170600-25171000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
45	chr6:25170600-25171600	Weak transcription	Hela-S3	cervix
46	chr6:25170600-25171800	Weak transcription	Muscle Satellite Cultured Cells	--
47	chr6:25170600-25172600	Weak transcription	HSMM	muscle
48	chr6:25170600-25172600	Weak transcription	NH-A	brain
49	chr6:25170600-25172600	Weak transcription	NHLF	lung
50	chr6:25170600-25173200	Weak transcription	Sigmoid Colon	Sigmoid Colon

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links