Variant report

Variant	rs28841671
Chromosome Location	chr4:86718306-86718307
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:8)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:8 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr4:86717637..86718454-chr4:86964866..86965718,3	MCF-7	breast:
2	chr4:86678145..86678790-chr4:86717860..86718656,2	MCF-7	breast:
3	chr4:86717774..86718537-chr4:86886876..86887427,3	MCF-7	breast:
4	chr4:86717783..86718591-chr4:86885186..86885920,6	MCF-7	breast:
5	chr4:86717537..86719169-chr4:86889518..86891294,13	MCF-7	breast:
6	chr4:86717526..86718413-chr4:86964881..86965596,2	MCF-7	breast:
7	chr4:86717573..86718676-chr4:86889897..86890637,3	MCF-7	breast:
8	chr4:86717884..86718437-chr4:86885535..86886084,2	MCF-7	breast:

No data

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

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs10020335	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10033293	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12644339	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs13127292	0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs17399388	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1869238	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs28375213	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs28522299	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs28544562	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs62315355	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs62315356	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs62315357	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6847264	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9307010	0.91[AMR][1000 genomes];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs958800	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9991970	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];0.85[ASN][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	nsv461566	chr4:85988032-86725502	Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
2	nsv594747	chr4:85988032-86725502	Enhancers Active TSS Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
3	nsv470048	chr4:85998783-86720838	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
4	esv3450999	chr4:86485840-86773745	Enhancers Weak transcription Genic enhancers Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region miRNA	2 gene(s)	inside rSNPs	diseases
5	nsv879517	chr4:86677107-86739805	Strong transcription Enhancers Flanking Active TSS Weak transcription Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:29 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:86701000-86728800	Weak transcription	Right Ventricle	heart
2	chr4:86704000-86719800	Enhancers	NHDF-Ad	bronchial
3	chr4:86705800-86719600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
4	chr4:86709000-86727000	Weak transcription	HSMMtube	muscle
5	chr4:86709200-86727000	Weak transcription	HSMM	muscle
6	chr4:86711000-86719800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr4:86712800-86719400	Weak transcription	Right Atrium	heart
8	chr4:86713200-86726400	Weak transcription	Primary B cells from peripheral blood	blood
9	chr4:86714600-86718800	Enhancers	HUVEC	blood vessel
10	chr4:86715200-86719800	Weak transcription	Fetal Lung	lung
11	chr4:86716000-86720000	Weak transcription	Fetal Muscle Trunk	muscle
12	chr4:86717800-86718800	Strong transcription	Primary B cells from cord blood	blood
13	chr4:86717800-86719000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
14	chr4:86717800-86719000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
15	chr4:86717800-86719600	Enhancers	Muscle Satellite Cultured Cells	--
16	chr4:86718000-86718400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
17	chr4:86718000-86718400	Flanking Active TSS	Adipose Nuclei	Adipose
18	chr4:86718000-86718800	Active TSS	A549	lung
19	chr4:86718000-86721800	Enhancers	Monocytes-CD14+_RO01746	blood
20	chr4:86718200-86718400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
21	chr4:86718200-86718600	Weak transcription	NHLF	lung
22	chr4:86718200-86718600	Enhancers	Osteobl	bone
23	chr4:86718200-86719000	Weak transcription	H1 Cell Line	embryonic stem cell
24	chr4:86718200-86719200	Weak transcription	Fetal Stomach	stomach
25	chr4:86718200-86719200	Weak transcription	HMEC	breast
26	chr4:86718200-86719600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
27	chr4:86718200-86719800	Enhancers	Liver	Liver
28	chr4:86718200-86728400	Weak transcription	Left Ventricle	heart
29	chr4:86718200-86733800	Weak transcription	Gastric	stomach

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links