Variant report

Variant	rs6873525
Chromosome Location	chr5:40846666-40846667
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr5:40835001..40837532-chr5:40844954..40847545,3	MCF-7	breast:
2	chr5:40843666..40846372-chr5:40846627..40850268,4	K562	blood:
3	chr5:40823890..40825642-chr5:40844270..40847206,2	MCF-7	breast:
4	chr5:40834549..40837244-chr5:40846032..40850284,6	MCF-7	breast:

Variant related genes	Relation type
ENSG00000145592	Chromatin interaction

Extended variants
information (count: 4 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:2)

rs_ID	r²[population]
rs2455306	1.00[ASW][hapmap];0.93[LWK][hapmap]
rs7735416	0.82[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv880438	chr5:40753877-40900717	Strong transcription Enhancers Weak transcription Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	160 gene(s)	inside rSNPs	diseases
2	nsv597877	chr5:40796746-40848803	Genic enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	158 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:44 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:40836000-40852600	Weak transcription	Small Intestine	intestine
2	chr5:40841400-40852000	Weak transcription	Pancreas	Pancrea
3	chr5:40841800-40852400	Weak transcription	Esophagus	oesophagus
4	chr5:40842200-40852200	Weak transcription	Left Ventricle	heart
5	chr5:40842200-40852600	Weak transcription	Placenta	Placenta
6	chr5:40842200-40853800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
7	chr5:40842400-40852000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
8	chr5:40842400-40852400	Weak transcription	Liver	Liver
9	chr5:40842400-40852400	Weak transcription	Ovary	ovary
10	chr5:40842400-40852600	Weak transcription	Primary T cells from cord blood	blood
11	chr5:40842400-40853400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
12	chr5:40842400-40853800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
13	chr5:40842400-40854200	Weak transcription	Fetal Stomach	stomach
14	chr5:40842400-40854600	Weak transcription	Brain Hippocampus Middle	brain
15	chr5:40842600-40847600	Weak transcription	HMEC	breast
16	chr5:40842800-40846800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
17	chr5:40842800-40849000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
18	chr5:40842800-40849200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
19	chr5:40842800-40852000	Weak transcription	Duodenum Smooth Muscle	Duodenum
20	chr5:40842800-40853200	Weak transcription	Fetal Intestine Small	intestine
21	chr5:40842800-40854000	Weak transcription	Aorta	Aorta
22	chr5:40842800-40856000	Weak transcription	Right Ventricle	heart
23	chr5:40843000-40849000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
24	chr5:40843200-40852200	Weak transcription	Duodenum Mucosa	Duodenum
25	chr5:40843400-40848800	Weak transcription	Primary B cells from cord blood	blood
26	chr5:40843400-40851800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
27	chr5:40843400-40852400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
28	chr5:40843600-40854000	Weak transcription	Colon Smooth Muscle	Colon
29	chr5:40843600-40857800	Weak transcription	Osteobl	bone
30	chr5:40843800-40847000	Weak transcription	Stomach Mucosa	stomach
31	chr5:40843800-40852000	Weak transcription	Adipose Nuclei	Adipose
32	chr5:40843800-40852000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
33	chr5:40844000-40852200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
34	chr5:40844000-40852400	Weak transcription	Hela-S3	cervix
35	chr5:40845000-40846800	Genic enhancers	Lung	lung
36	chr5:40845200-40847200	Genic enhancers	Primary neutrophils fromperipheralblood	blood
37	chr5:40845400-40851400	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
38	chr5:40845400-40852400	Weak transcription	Gastric	stomach
39	chr5:40845600-40847400	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
40	chr5:40846000-40846800	Enhancers	Spleen	Spleen
41	chr5:40846000-40846800	Strong transcription	HUVEC	blood vessel
42	chr5:40846600-40846800	Strong transcription	Primary hematopoietic stem cells	blood
43	chr5:40846600-40847000	Strong transcription	Monocytes-CD14+_RO01746	blood
44	chr5:40846600-40847400	Genic enhancers	Primary monocytes fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links