Variant report

Variant	rs35852340
Chromosome Location	chr15:83475053-83475054
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:99)
CpG islands
(count:61)
Chromatin interactive
region (count:2)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:99 , 50 per page) page: 1 2

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	ELF1	chr15:83474841-83475346	GM12878	blood:	n/a	n/a
2	CTCF	chr15:83474960-83475110	GM12865	blood:	n/a	n/a
3	EBF1	chr15:83474654-83475211	GM12878	blood:	n/a	n/a
4	FOXM1	chr15:83474716-83475346	GM12878	blood:	n/a	n/a
5	STAT5A	chr15:83474673-83475135	GM12878	blood:	n/a	n/a
6	PAX5	chr15:83474700-83475307	GM12878	blood:	n/a	chr15:83475070-83475089
7	ZNF384	chr15:83475038-83475271	K562	blood:	n/a	n/a
8	STAT1	chr15:83474688-83475123	GM12878	blood:	n/a	n/a
9	CTCF	chr15:83474928-83475064	GM19238	blood:	n/a	chr15:83474952-83474960
10	MEF2A	chr15:83474707-83475167	K562	blood:	n/a	chr15:83474940-83474954 chr15:83474905-83474919 chr15:83474939-83474954
11	MXI1	chr15:83474521-83475235	GM12878	blood:	n/a	chr15:83475084-83475093
12	MEF2C	chr15:83474699-83475098	GM12878	blood:	n/a	chr15:83474940-83474954 chr15:83474905-83474919
13	NFIC	chr15:83474688-83475328	GM12878	blood:	n/a	n/a
14	PAX5	chr15:83474751-83475259	GM12878	blood:	n/a	chr15:83475070-83475089
15	BHLHE40	chr15:83474840-83475124	K562	blood:	n/a	n/a
16	CTCF	chr15:83474903-83475062	GM19239	blood:	n/a	chr15:83474952-83474960
17	NFIC	chr15:83474707-83475306	GM12878	blood:	n/a	n/a
18	PAX5	chr15:83474778-83475253	GM12891	blood:	n/a	chr15:83475070-83475089
19	SP1	chr15:83474678-83475230	GM12878	blood:	n/a	n/a
20	CTCF	chr15:83474920-83475070	GM12868	blood:	n/a	chr15:83474952-83474960
21	MEF2A	chr15:83474581-83475243	GM12878	blood:	n/a	chr15:83474940-83474954 chr15:83474905-83474919 chr15:83474939-83474954
22	WRNIP1	chr15:83474813-83475144	GM12878	blood:	n/a	n/a
23	BATF	chr15:83474735-83475161	GM12878	blood:	n/a	n/a
24	CTCF	chr15:83474920-83475070	GM12867	blood:	n/a	chr15:83474952-83474960
25	USF1	chr15:83474872-83475094	GM12878	blood:	n/a	n/a
26	NFE2	chr15:83474966-83475154	GM12878	blood:	n/a	n/a
27	BCL3	chr15:83474748-83475192	GM12878	blood:	n/a	n/a
28	TCF12	chr15:83474853-83475126	GM12878	blood:	n/a	n/a
29	CTCF	chr15:83474920-83475070	GM12864	blood:	n/a	chr15:83474952-83474960
30	EP300	chr15:83474808-83475225	GM12878	blood:	n/a	n/a
31	MYC	chr15:83474816-83475063	NB4	blood:	n/a	n/a
32	PAX5	chr15:83474802-83475259	GM12878	blood:	n/a	chr15:83475070-83475089
33	SP1	chr15:83474733-83475226	GM12878	blood:	n/a	n/a
34	TBL1XR1	chr15:83474723-83475346	GM12878	blood:	n/a	n/a
35	FOXM1	chr15:83474712-83475326	GM12878	blood:	n/a	n/a
36	RAD21	chr15:83474875-83475114	GM12878	blood:	n/a	n/a
37	POU2F2	chr15:83474765-83475131	GM12878	blood:	n/a	n/a
38	CTCF	chr15:83474933-83475078	GM12878	blood:	n/a	chr15:83474952-83474960
39	EBF1	chr15:83474545-83475271	GM12878	blood:	n/a	n/a
40	MTA3	chr15:83474539-83475321	GM12878	blood:	n/a	n/a
41	CTCF	chr15:83474940-83475090	GM12801	blood:	n/a	chr15:83474952-83474960
42	PBX3	chr15:83474865-83475089	GM12878	blood:	n/a	n/a
43	USF1	chr15:83474803-83475161	K562	blood:	n/a	n/a
44	PAX5	chr15:83474790-83475205	GM12892	blood:	n/a	chr15:83475070-83475089
45	PML	chr15:83474801-83475308	GM12878	blood:	n/a	n/a
46	USF1	chr15:83474912-83475105	H1-hESC	embryonic stem cell:	n/a	n/a
47	MEF2C	chr15:83474675-83475308	GM12878	blood:	n/a	chr15:83474940-83474954 chr15:83474905-83474919
48	YY1	chr15:83474724-83475129	GM12892	blood:	n/a	n/a
49	CTCF	chr15:83474980-83475130	GM12864	blood:	n/a	n/a
50	BHLHE40	chr15:83474789-83475268	GM12878	blood:	n/a	n/a

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

No.	Chromosome Location	Cell Line	Cell type	Cell Stage
1	chr15:83475013-83475063	NHBE	bronchial:	n/a
2	chr15:83475013-83475063	ovcar-3	ovarian:	n/a
3	chr15:83475013-83475063	PrEC	prostate:	n/a
4	chr15:83475013-83475063	AG04449	skin:	fetal
5	chr15:83475013-83475063	Caco-2	colon:	n/a
6	chr15:83475013-83475063	K562	blood:	n/a
7	chr15:83475013-83475063	NT2-D1	testis:	n/a
8	chr15:83475013-83475063	HRE	kidney:	n/a
9	chr15:83475013-83475063	AoSMC	blood vessel:	n/a
10	chr15:83475013-83475063	AG04450	lung:	fetal
11	chr15:83475013-83475063	GM12878	blood:	n/a
12	chr15:83475013-83475063	SK-N-SH_RA	brain:	n/a
13	chr15:83475013-83475063	A549	lung:	n/a
14	chr15:83475013-83475063	NH-A	brain:	n/a
15	chr15:83475013-83475063	T-47D	breast:	n/a
16	chr15:83475013-83475063	HL-60	blood:	n/a
17	chr15:83475013-83475063	HCT-116	colon:	n/a
18	chr15:83475013-83475063	HCM	heart:	n/a
19	chr15:83475013-83475063	NHDF-neo	bronchial:	n/a
20	chr15:83475013-83475063	HNPCEpiC	eye:	n/a
21	chr15:83475013-83475063	MCF-7	breast:	n/a
22	chr15:83475013-83475063	U87	brain:	n/a
23	chr15:83475013-83475063	Hela-S3	cervix:	n/a
24	chr15:83475013-83475063	HRCEpiC	kidney:	n/a
25	chr15:83475013-83475063	HEEpiC	esophagus:	n/a
26	chr15:83475013-83475063	HepG2	liver:	n/a
27	chr15:83475013-83475063	Jurkat	blood:	n/a
28	chr15:83475013-83475063	LNCaP	prostate:	n/a
29	chr15:83475013-83475063	HAEpiC	amniotic membrane:	n/a
30	chr15:83475013-83475063	BJ	skin:	n/a
31	chr15:83475013-83475063	NB4	blood:	n/a
32	chr15:83475013-83475063	PANC-1	pancreas:	n/a
33	chr15:83475013-83475063	BE2_C	brain:	n/a
34	chr15:83475013-83475063	HUVEC	blood vessel:	n/a
35	chr15:83475013-83475063	GM06990	blood:	n/a
36	chr15:83475013-83475063	ECC-1	luminal epithelium:	n/a
37	chr15:83475013-83475063	GM12891	blood:	n/a
38	chr15:83475013-83475063	MCF10A-Er-Src	breast:	n/a
39	chr15:83475013-83475063	IMR90	lung:	fetal
40	chr15:83475013-83475063	HEK293	kidney:	embryo
41	chr15:83475013-83475063	SKMC	muscle:	n/a
42	chr15:83475013-83475063	GM19239	blood:	n/a
43	chr15:83475013-83475063	HRPEpiC	eye:	n/a
44	chr15:83475013-83475063	H1-hESC	embryonic stem cell:	embryo
45	chr15:83475013-83475063	SK-N-MC	brain:	n/a
46	chr15:83475013-83475063	AG09319	gingival:	n/a
47	chr15:83475013-83475063	SK-N-SH	brain:	n/a
48	chr15:83475013-83475063	AG10803	skin:	n/a
49	chr15:83475013-83475063	ProgFib	skin:	n/a
50	chr15:83475013-83475063	AG09309	skin:	n/a

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

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:83422950..83425938-chr15:83474104..83476004,2	K562	blood:
2	chr15:83417500..83421911-chr15:83474614..83480217,8	MCF-7	breast:

No data

Variant related genes	Relation type
WHAMM	TF binding region
FSD2	TF binding region
FSD2	CpG island
WHAMM	CpG island
ENSG00000250988	Chromatin interaction
ENSG00000252690	Chromatin interaction

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs1105287	0.91[EUR][1000 genomes]
rs11631033	0.88[EUR][1000 genomes]
rs11631209	0.88[EUR][1000 genomes]
rs11631378	0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11633676	0.91[EUR][1000 genomes]
rs11635290	0.89[EUR][1000 genomes]
rs11635357	0.88[EUR][1000 genomes]
rs11637448	0.83[EUR][1000 genomes]
rs11637563	0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11857233	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12907810	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12914752	0.83[EUR][1000 genomes]
rs12917248	0.89[EUR][1000 genomes]
rs1553886	0.91[EUR][1000 genomes]
rs17158255	0.85[ASN][1000 genomes]
rs2137052	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs34337936	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs35590674	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs35989107	0.91[EUR][1000 genomes]
rs35989256	0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs3814281	0.85[ASN][1000 genomes]
rs3814282	0.85[ASN][1000 genomes]
rs4132210	0.91[EUR][1000 genomes]
rs4779061	0.90[EUR][1000 genomes]
rs57252413	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs60414706	0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs72753973	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv469557	chr15:83417763-83560629	Enhancers Genic enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	45 gene(s)	inside rSNPs	diseases
2	nsv482340	chr15:83417763-83560629	Strong transcription Weak transcription Active TSS Enhancers ZNF genes & repeats Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	45 gene(s)	inside rSNPs	diseases
3	nsv471687	chr15:83417764-83560629	Enhancers Flanking Active TSS Genic enhancers Strong transcription Weak transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	45 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	chr15:83450400-83477600	Weak transcription	Brain Hippocampus Middle	brain
2	chr15:83469200-83477600	Weak transcription	Brain Cingulate Gyrus	brain
3	chr15:83469400-83477600	Weak transcription	Brain Inferior Temporal Lobe	brain
4	chr15:83469800-83477400	Weak transcription	Stomach Smooth Muscle	stomach
5	chr15:83471000-83477600	Weak transcription	Spleen	Spleen
6	chr15:83471200-83478200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
7	chr15:83472000-83477800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
8	chr15:83472400-83478200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr15:83472600-83475200	Enhancers	HSMMtube	muscle
10	chr15:83472600-83476000	Enhancers	HepG2	liver
11	chr15:83473000-83475400	Active TSS	Skeletal Muscle Female	skeletal muscle
12	chr15:83473600-83477600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
13	chr15:83473600-83477800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
14	chr15:83473800-83475800	Enhancers	Primary B cells from peripheral blood	blood
15	chr15:83473800-83477400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
16	chr15:83473800-83477600	Weak transcription	Muscle Satellite Cultured Cells	--
17	chr15:83473800-83477600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
18	chr15:83473800-83477600	Weak transcription	NHEK	skin
19	chr15:83474000-83475400	Enhancers	Primary B cells from cord blood	blood
20	chr15:83474000-83477400	Weak transcription	HMEC	breast
21	chr15:83474400-83475200	Enhancers	K562	blood
22	chr15:83474400-83475400	Flanking Active TSS	GM12878-XiMat	blood
23	chr15:83474600-83475200	Enhancers	HSMM	muscle
24	chr15:83474800-83475200	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
25	chr15:83474800-83475400	Weak transcription	Skeletal Muscle Male	skeletal muscle
26	chr15:83474800-83475600	Weak transcription	Fetal Muscle Leg	muscle
27	chr15:83474800-83475600	Weak transcription	Psoas Muscle	Psoas
28	chr15:83474800-83477400	Weak transcription	Right Ventricle	heart
29	chr15:83474800-83477600	Weak transcription	Brain Angular Gyrus	brain
30	chr15:83475000-83475200	Flanking Active TSS	Fetal Heart	heart
31	chr15:83475000-83476600	Weak transcription	Right Atrium	heart
32	chr15:83475000-83477400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
33	chr15:83475000-83477400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
34	chr15:83475000-83477400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
35	chr15:83475000-83477400	Weak transcription	Fetal Muscle Trunk	muscle
36	chr15:83475000-83477400	Weak transcription	Pancreas	Pancrea
37	chr15:83475000-83478400	Weak transcription	Left Ventricle	heart

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links