Variant report

Variant	rs17010863
Chromosome Location	chr4:86698305-86698306
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	SRF	chr4:86697610-86698319	HCT-116	colon:	n/a	chr4:86697971-86697988

Variant related genes	Relation type
ARHGAP24	TF binding region

Extended variants
information (count: 38 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs1014642	0.82[EUR][1000 genomes]
rs11097071	0.95[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11945319	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12498959	0.95[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12505724	0.83[EUR][1000 genomes]
rs12506038	0.82[EUR][1000 genomes]
rs12507198	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12508919	0.95[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12510148	0.83[EUR][1000 genomes]
rs13102863	0.82[EUR][1000 genomes]
rs13106553	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs13108523	0.82[EUR][1000 genomes]
rs13110928	0.82[EUR][1000 genomes]
rs13127367	0.82[EUR][1000 genomes]
rs13136153	0.83[EUR][1000 genomes]
rs13137575	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs13139248	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs17010851	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17010857	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1966862	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2004613	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs34056429	0.82[EUR][1000 genomes]
rs34820504	0.82[EUR][1000 genomes]
rs35472747	0.83[EUR][1000 genomes]
rs3889735	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4693127	0.91[EUR][1000 genomes]
rs4693734	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4693735	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs4693736	0.83[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs58146546	0.82[EUR][1000 genomes]
rs6813860	0.83[EUR][1000 genomes]
rs71599423	0.82[EUR][1000 genomes]
rs7676486	0.82[EUR][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:50 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:86663400-86699800	Weak transcription	Fetal Muscle Trunk	muscle
2	chr4:86683200-86699000	Weak transcription	Primary B cells from cord blood	blood
3	chr4:86684800-86705600	Weak transcription	Small Intestine	intestine
4	chr4:86695400-86699200	Weak transcription	Gastric	stomach
5	chr4:86695400-86708200	Weak transcription	Pancreas	Pancrea
6	chr4:86695600-86699800	Weak transcription	Right Ventricle	heart
7	chr4:86696000-86699400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
8	chr4:86696000-86703800	Weak transcription	Pancreatic Islets	Pancreatic Islet
9	chr4:86696200-86699400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
10	chr4:86696400-86699600	Weak transcription	HUES48 Cell Line	embryonic stem cell
11	chr4:86696400-86699600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
12	chr4:86697000-86699200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
13	chr4:86697000-86699200	Enhancers	NHDF-Ad	bronchial
14	chr4:86697000-86699400	Enhancers	NHLF	lung
15	chr4:86697200-86707800	Weak transcription	Spleen	Spleen
16	chr4:86697400-86698400	Enhancers	Hela-S3	cervix
17	chr4:86697400-86698400	Flanking Active TSS	HUVEC	blood vessel
18	chr4:86697400-86698600	Enhancers	NHEK	skin
19	chr4:86697400-86699000	Enhancers	HMEC	breast
20	chr4:86697400-86699800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
21	chr4:86697600-86699400	Weak transcription	Psoas Muscle	Psoas
22	chr4:86697800-86699200	Weak transcription	Fetal Lung	lung
23	chr4:86697800-86699400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
24	chr4:86697800-86699400	Weak transcription	NH-A	brain
25	chr4:86697800-86699800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
26	chr4:86697800-86699800	Enhancers	Primary B cells from peripheral blood	blood
27	chr4:86697800-86699800	Weak transcription	Fetal Stomach	stomach
28	chr4:86697800-86699800	Weak transcription	HSMMtube	muscle
29	chr4:86697800-86700200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
30	chr4:86698000-86698600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
31	chr4:86698000-86699000	Weak transcription	GM12878-XiMat	blood
32	chr4:86698000-86699200	Weak transcription	Stomach Smooth Muscle	stomach
33	chr4:86698000-86699200	Weak transcription	A549	lung
34	chr4:86698000-86699400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
35	chr4:86698000-86699400	Enhancers	Muscle Satellite Cultured Cells	--
36	chr4:86698000-86699400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
37	chr4:86698000-86699400	Weak transcription	Fetal Kidney	kidney
38	chr4:86698000-86699800	Weak transcription	Brain Hippocampus Middle	brain
39	chr4:86698000-86699800	Weak transcription	Fetal Muscle Leg	muscle
40	chr4:86698000-86701800	Weak transcription	Fetal Heart	heart
41	chr4:86698000-86704800	Weak transcription	Sigmoid Colon	Sigmoid Colon
42	chr4:86698200-86699200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
43	chr4:86698200-86699200	Weak transcription	Primary neutrophils fromperipheralblood	blood
44	chr4:86698200-86699200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
45	chr4:86698200-86699200	Weak transcription	Adipose Nuclei	Adipose
46	chr4:86698200-86699400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
47	chr4:86698200-86699400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
48	chr4:86698200-86699400	Weak transcription	HSMM	muscle
49	chr4:86698200-86699400	Weak transcription	Osteobl	bone
50	chr4:86698200-86699800	Weak transcription	HUES6 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links