Variant report

Variant	rs13105921
Chromosome Location	chr4:86699726-86699727
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:49)
CpG islands
(count:61)
Chromatin interactive
region (count:0)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:49 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	BCLAF1	chr4:86699359-86699730	GM12878	blood:	n/a	n/a
2	EP300	chr4:86699439-86699782	GM12878	blood:	n/a	n/a
3	POLR2A	chr4:86699600-86702254	HUVEC	blood vessel:	n/a	n/a
4	REST	chr4:86699537-86699738	Hela-S3	cervix:	n/a	n/a
5	CHD1	chr4:86699162-86700342	GM12878	blood:	n/a	n/a
6	FOS	chr4:86699395-86700455	MCF10A-Er-Src	breast:	n/a	chr4:86699871-86699881 chr4:86699871-86699881
7	SPI1	chr4:86699436-86699836	GM12878	blood:	n/a	n/a
8	NFIC	chr4:86699388-86700336	GM12878	blood:	n/a	chr4:86700272-86700300
9	E2F4	chr4:86699524-86699922	MCF10A-Er-Src	breast:	n/a	n/a
10	SPI1	chr4:86699120-86700314	GM12878	blood:	n/a	n/a
11	RUNX3	chr4:86699437-86699849	GM12878	blood:	n/a	n/a
12	FOS	chr4:86699406-86699940	MCF10A-Er-Src	breast:	n/a	chr4:86699871-86699881 chr4:86699871-86699881
13	NFIC	chr4:86699315-86700385	GM12878	blood:	n/a	chr4:86700272-86700300
14	FOS	chr4:86699550-86700019	HUVEC	blood vessel:	n/a	chr4:86699871-86699881 chr4:86699871-86699881
15	MAZ	chr4:86699438-86699856	GM12878	blood:	n/a	n/a
16	ATF2	chr4:86699429-86700328	GM12878	blood:	n/a	n/a
17	SPI1	chr4:86699438-86699878	GM12891	blood:	n/a	n/a
18	POLR2A	chr4:86699562-86701308	IMR90	lung:	n/a	n/a
19	CEBPB	chr4:86699412-86699766	IMR90	lung:	n/a	chr4:86699590-86699601
20	MXI1	chr4:86699433-86700097	GM12878	blood:	n/a	n/a
21	BCLAF1	chr4:86699355-86699862	GM12878	blood:	n/a	n/a
22	SPI1	chr4:86699364-86699863	GM12891	blood:	n/a	n/a
23	STAT3	chr4:86699375-86699806	MCF10A-Er-Src	breast:	n/a	n/a
24	CUX1	chr4:86699387-86700362	GM12878	blood:	n/a	n/a
25	IKZF1	chr4:86699356-86700224	GM12878	blood:	n/a	n/a
26	CEBPB	chr4:86699446-86699737	A549	lung:	n/a	chr4:86699590-86699601
27	EP300	chr4:86699405-86700285	GM12878	blood:	n/a	chr4:86699822-86699836
28	IRF4	chr4:86699409-86700279	GM12878	blood:	n/a	n/a
29	STAT1	chr4:86699551-86700188	GM12878	blood:	n/a	n/a
30	EBF1	chr4:86699309-86700310	GM12878	blood:	n/a	n/a
31	SPI1	chr4:86699504-86699796	GM12878	blood:	n/a	n/a
32	BCL11A	chr4:86699408-86699769	GM12878	blood:	n/a	n/a
33	IRF4	chr4:86699385-86699843	GM12878	blood:	n/a	n/a
34	ATF2	chr4:86699377-86700358	GM12878	blood:	n/a	n/a
35	TBL1XR1	chr4:86699428-86700222	GM12878	blood:	n/a	n/a
36	RELA	chr4:86699362-86700959	GM19099	blood:	n/a	n/a
37	RFX5	chr4:86699570-86699770	GM12878	blood:	n/a	n/a
38	CHD2	chr4:86699478-86700234	GM12878	blood:	n/a	n/a
39	POLR2A	chr4:86699118-86705933	HUVEC	blood vessel:	n/a	n/a
40	ZNF143	chr4:86699456-86700176	GM12878	blood:	n/a	n/a
41	BCL11A	chr4:86699475-86699738	GM12878	blood:	n/a	n/a
42	BHLHE40	chr4:86699425-86700307	GM12878	blood:	n/a	n/a
43	EP300	chr4:86699430-86700446	GM12878	blood:	n/a	chr4:86699822-86699836
44	POLR2A	chr4:86699548-86701228	HUVEC	blood vessel:	n/a	n/a
45	ZNF384	chr4:86699470-86699784	GM12878	blood:	n/a	n/a
46	RCOR1	chr4:86699527-86700250	GM12878	blood:	n/a	n/a
47	TBP	chr4:86699391-86700455	GM12878	blood:	n/a	n/a
48	POLR2A	chr4:86698984-86700789	MCF10A-Er-Src	breast:	n/a	n/a
49	STAT3	chr4:86699362-86700197	GM12878	blood:	n/a	n/a

(count:61 , 50 per page) page: 1 2

No.	Chromosome Location	Cell Line	Cell type	Cell Stage
1	chr4:86699705-86699755	Hepatocyte	liver:	n/a
2	chr4:86699705-86699755	ovcar-3	ovarian:	n/a
3	chr4:86699705-86699755	SK-N-SH_RA	brain:	n/a
4	chr4:86699705-86699755	SK-N-MC	brain:	n/a
5	chr4:86699705-86699755	PFSK-1	brain:	n/a
6	chr4:86699705-86699755	AG10803	skin:	n/a
7	chr4:86699705-86699755	HepG2	liver:	n/a
8	chr4:86699705-86699755	HCF	heart:	n/a
9	chr4:86699705-86699755	ECC-1	luminal epithelium:	n/a
10	chr4:86699705-86699755	BJ	skin:	n/a
11	chr4:86699705-86699755	SKMC	muscle:	n/a
12	chr4:86699705-86699755	MCF-7	breast:	n/a
13	chr4:86699705-86699755	H1-hESC	embryonic stem cell:	embryo
14	chr4:86699705-86699755	PrEC	prostate:	n/a
15	chr4:86699705-86699755	HUVEC	blood vessel:	n/a
16	chr4:86699705-86699755	Jurkat	blood:	n/a
17	chr4:86699705-86699755	U87	brain:	n/a
18	chr4:86699705-86699755	GM12891	blood:	n/a
19	chr4:86699705-86699755	ProgFib	skin:	n/a
20	chr4:86699705-86699755	Caco-2	colon:	n/a
21	chr4:86699705-86699755	GM12878	blood:	n/a
22	chr4:86699705-86699755	GM19239	blood:	n/a
23	chr4:86699705-86699755	HPAEpiC	pulmonary alveolar:	n/a
24	chr4:86699705-86699755	Hela-S3	cervix:	n/a
25	chr4:86699705-86699755	NH-A	brain:	n/a
26	chr4:86699705-86699755	HCT-116	colon:	n/a
27	chr4:86699705-86699755	HIPEpiC	eye:	n/a
28	chr4:86699705-86699755	HEEpiC	esophagus:	n/a
29	chr4:86699705-86699755	AoSMC	blood vessel:	n/a
30	chr4:86699705-86699755	T-47D	breast:	n/a
31	chr4:86699705-86699755	SK-N-SH	brain:	n/a
32	chr4:86699705-86699755	HCPEpiC	choroid plexus:	n/a
33	chr4:86699705-86699755	IMR90	lung:	fetal
34	chr4:86699705-86699755	HRCEpiC	kidney:	n/a
35	chr4:86699705-86699755	GM06990	blood:	n/a
36	chr4:86699705-86699755	SAEC	small airway:	n/a
37	chr4:86699705-86699755	NHBE	bronchial:	n/a
38	chr4:86699705-86699755	HRE	kidney:	n/a
39	chr4:86699705-86699755	HMEC	breast:	n/a
40	chr4:86699705-86699755	NHDF-neo	bronchial:	n/a
41	chr4:86699705-86699755	HNPCEpiC	eye:	n/a
42	chr4:86699705-86699755	A549	lung:	n/a
43	chr4:86699705-86699755	NT2-D1	testis:	n/a
44	chr4:86699705-86699755	AG09309	skin:	n/a
45	chr4:86699705-86699755	LNCaP	prostate:	n/a
46	chr4:86699705-86699755	GM12892	blood:	n/a
47	chr4:86699705-86699755	CMK	blood:	n/a
48	chr4:86699705-86699755	RPTEC	kidney:	n/a
49	chr4:86699705-86699755	AG09319	gingival:	n/a
50	chr4:86699705-86699755	HEK293	kidney:	embryo

No data

Variant related genes	Relation type
ARHGAP24	TF binding region
ARHGAP24	CpG island

Extended variants
information (count: 42 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs10012090	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes]
rs10516755	1.00[CEU][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes]
rs1116117	0.92[YRI][hapmap]
rs11724267	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11732231	0.82[CEU][hapmap]
rs11736641	1.00[CEU][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs13111293	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs13111662	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs13112030	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs13113783	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs13137008	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1482085	0.82[CEU][hapmap];1.00[YRI][hapmap]
rs1482094	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes]
rs17010755	1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs17010812	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs17010816	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs17010847	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2062098	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap]
rs2198328	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap]
rs2601855	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs28490560	0.82[EUR][1000 genomes]
rs2869384	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs343849	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs343856	0.80[AMR][1000 genomes]
rs343860	1.00[CEU][hapmap];1.00[CHB][hapmap];0.80[AMR][1000 genomes]
rs34422670	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs34949750	0.96[EUR][1000 genomes]
rs41527748	0.82[CHB][hapmap];1.00[JPT][hapmap]
rs6828509	0.84[YRI][hapmap]
rs7655100	0.83[CEU][hapmap];0.91[YRI][hapmap];0.83[AFR][1000 genomes]
rs7658797	1.00[CEU][hapmap];1.00[JPT][hapmap]
rs7660252	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7660702	1.00[CEU][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes]
rs7677114	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap]
rs7692808	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes]
rs900205	0.87[AFR][1000 genomes]
rs994285	0.91[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap]

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:58 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:86663400-86699800	Weak transcription	Fetal Muscle Trunk	muscle
2	chr4:86684800-86705600	Weak transcription	Small Intestine	intestine
3	chr4:86695400-86708200	Weak transcription	Pancreas	Pancrea
4	chr4:86695600-86699800	Weak transcription	Right Ventricle	heart
5	chr4:86696000-86703800	Weak transcription	Pancreatic Islets	Pancreatic Islet
6	chr4:86697200-86707800	Weak transcription	Spleen	Spleen
7	chr4:86697400-86699800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
8	chr4:86697800-86699800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
9	chr4:86697800-86699800	Enhancers	Primary B cells from peripheral blood	blood
10	chr4:86697800-86699800	Weak transcription	Fetal Stomach	stomach
11	chr4:86697800-86699800	Weak transcription	HSMMtube	muscle
12	chr4:86697800-86700200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
13	chr4:86698000-86699800	Weak transcription	Brain Hippocampus Middle	brain
14	chr4:86698000-86699800	Weak transcription	Fetal Muscle Leg	muscle
15	chr4:86698000-86701800	Weak transcription	Fetal Heart	heart
16	chr4:86698000-86704800	Weak transcription	Sigmoid Colon	Sigmoid Colon
17	chr4:86698200-86699800	Weak transcription	HUES6 Cell Line	embryonic stem cell
18	chr4:86698800-86699800	Flanking Active TSS	HUVEC	blood vessel
19	chr4:86699200-86699800	Enhancers	Colon Smooth Muscle	Colon
20	chr4:86699200-86700000	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
21	chr4:86699200-86700000	Enhancers	Monocytes-CD14+_RO01746	blood
22	chr4:86699200-86700200	Enhancers	Primary monocytes fromperipheralblood	blood
23	chr4:86699200-86700400	Flanking Active TSS	GM12878-XiMat	blood
24	chr4:86699400-86699800	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
25	chr4:86699400-86699800	Flanking Active TSS	Muscle Satellite Cultured Cells	--
26	chr4:86699400-86699800	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
27	chr4:86699400-86699800	Enhancers	Psoas Muscle	Psoas
28	chr4:86699400-86699800	Enhancers	Rectal Smooth Muscle	rectum
29	chr4:86699400-86699800	Flanking Active TSS	A549	lung
30	chr4:86699400-86699800	Enhancers	HSMM	muscle
31	chr4:86699400-86699800	Flanking Active TSS	Osteobl	bone
32	chr4:86699400-86700000	Enhancers	ES-I3 Cell Line	embryonic stem cell
33	chr4:86699400-86700000	Active TSS	HMEC	breast
34	chr4:86699400-86700200	Enhancers	iPS-20b Cell Line	embryonic stem cell
35	chr4:86699400-86700400	Active TSS	Rectal Mucosa Donor 31	rectum
36	chr4:86699400-86700800	Active TSS	NHDF-Ad	bronchial
37	chr4:86699400-86701000	Flanking Active TSS	Primary B cells from cord blood	blood
38	chr4:86699400-86701200	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
39	chr4:86699400-86701800	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
40	chr4:86699400-86702000	Active TSS	NH-A	brain
41	chr4:86699400-86702400	Active TSS	Duodenum Smooth Muscle	Duodenum
42	chr4:86699600-86699800	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
43	chr4:86699600-86700000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
44	chr4:86699600-86700000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
45	chr4:86699600-86700000	Active TSS	Fetal Kidney	kidney
46	chr4:86699600-86700000	Flanking Active TSS	Fetal Lung	lung
47	chr4:86699600-86700200	Enhancers	iPS-18 Cell Line	embryonic stem cell
48	chr4:86699600-86700200	Active TSS	Adipose Nuclei	Adipose
49	chr4:86699600-86700200	Flanking Active TSS	Liver	Liver
50	chr4:86699600-86700600	Enhancers	HUES48 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links