Variant report

Variant	rs4694882
Chromosome Location	chr4:48047825-48047826
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	chr4:48043679..48046228-chr4:48047228..48049577,2	MCF-7	breast:

Extended variants
information (count: 19 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10517203	1.00[AMR][1000 genomes]
rs10517205	1.00[AMR][1000 genomes]
rs1396048	1.00[AMR][1000 genomes]
rs16860890	1.00[AMR][1000 genomes]
rs16860894	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16860898	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1911668	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2099742	1.00[AMR][1000 genomes]
rs4694881	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs5005127	1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6827424	1.00[AMR][1000 genomes]
rs6848406	1.00[AMR][1000 genomes]
rs73149663	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7690816	0.93[AFR][1000 genomes];1.00[AMR][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	esv3447039	chr4:47822266-48285222	Flanking Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Strong transcription Active TSS Bivalent/Poised TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	34 gene(s)	inside rSNPs	diseases
2	nsv1013947	chr4:47915527-48052824	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv537082	chr4:47915527-48052824	Flanking Active TSS Active TSS Weak transcription Flanking Bivalent TSS/Enh Enhancers Bivalent/Poised TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	nsv1006745	chr4:47935250-48052824	Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Weak transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	nsv537083	chr4:47935250-48052824	Enhancers Active TSS Genic enhancers Weak transcription Strong transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:37 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:48019800-48049800	Weak transcription	Esophagus	oesophagus
2	chr4:48020600-48049600	Weak transcription	Colonic Mucosa	Colon
3	chr4:48034200-48049600	Weak transcription	Pancreas	Pancrea
4	chr4:48038600-48053000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr4:48041600-48053000	Weak transcription	HMEC	breast
6	chr4:48044600-48049200	Enhancers	Primary B cells from cord blood	blood
7	chr4:48044800-48049200	Enhancers	Primary T helper cells PMA-I stimulated	--
8	chr4:48044800-48049400	Weak transcription	Rectal Mucosa Donor 31	rectum
9	chr4:48045000-48049200	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
10	chr4:48045000-48049400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
11	chr4:48045000-48049400	Enhancers	Primary T helper cells fromperipheralblood	blood
12	chr4:48045200-48048200	Enhancers	Stomach Mucosa	stomach
13	chr4:48045200-48049000	Weak transcription	Duodenum Mucosa	Duodenum
14	chr4:48045400-48052200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
15	chr4:48045600-48048200	Weak transcription	Primary hematopoietic stem cells	blood
16	chr4:48045600-48048200	Weak transcription	Fetal Heart	heart
17	chr4:48045800-48048400	Weak transcription	Skeletal Muscle Female	skeletal muscle
18	chr4:48045800-48048800	Enhancers	Primary T killer memory cells from peripheral blood	blood
19	chr4:48045800-48049000	Weak transcription	Sigmoid Colon	Sigmoid Colon
20	chr4:48045800-48049400	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
21	chr4:48045800-48049600	Weak transcription	HUES6 Cell Line	embryonic stem cell
22	chr4:48045800-48052600	Weak transcription	Placenta Amnion	Placenta Amnion
23	chr4:48046000-48049000	Weak transcription	Liver	Liver
24	chr4:48046000-48049200	Weak transcription	HepG2	liver
25	chr4:48046000-48049600	Weak transcription	Fetal Intestine Small	intestine
26	chr4:48046200-48049400	Enhancers	Primary T cells fromperipheralblood	blood
27	chr4:48046400-48049000	Enhancers	Primary T helper naive cells from peripheral blood	blood
28	chr4:48046400-48049200	Enhancers	Primary T cells from cord blood	blood
29	chr4:48046400-48050400	Enhancers	Primary T killer naive cells fromperipheralblood	blood
30	chr4:48046600-48049000	Bivalent Enhancer	Primary B cells from peripheral blood	blood
31	chr4:48047000-48048000	Weak transcription	Fetal Thymus	thymus
32	chr4:48047200-48048200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
33	chr4:48047600-48048800	Bivalent Enhancer	Primary Natural Killer cells fromperipheralblood	blood
34	chr4:48047800-48048000	Flanking Active TSS	GM12878-XiMat	blood
35	chr4:48047800-48048800	Bivalent Enhancer	Monocytes-CD14+_RO01746	blood
36	chr4:48047800-48049200	Enhancers	Primary T helper naive cells fromperipheralblood	blood
37	chr4:48047800-48049400	Enhancers	Skeletal Muscle Male	skeletal muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links