Variant report

Variant	rs10764661
Chromosome Location	chr10:18947947-18947948
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	MAX	chr10:18947237-18948983	HepG2	liver:	n/a	n/a
2	MAX	chr10:18947894-18948490	ECC-1	luminal epithelium:	n/a	n/a
3	CEBPB	chr10:18947592-18948549	GM12878	blood:	n/a	n/a
4	BCL3	chr10:18947930-18948393	GM12878	blood:	n/a	n/a
5	ZNF384	chr10:18947783-18949244	K562	blood:	n/a	n/a
6	POLR2A	chr10:18946909-18949092	HepG2	liver:	n/a	n/a
7	POLR2A	chr10:18947846-18949208	H1-neurons	neurons:	n/a	n/a
8	POLR2A	chr10:18947134-18949376	GM12878	blood:	n/a	n/a
9	TCF3	chr10:18947862-18948257	GM12878	blood:	n/a	n/a
10	TCF12	chr10:18947868-18948695	ECC-1	luminal epithelium:	n/a	n/a
11	SIN3AK20	chr10:18947857-18948827	K562	blood:	n/a	n/a
12	TAF1	chr10:18947879-18948920	ECC-1	luminal epithelium:	n/a	n/a
13	SP1	chr10:18947905-18948411	GM12878	blood:	n/a	chr10:18948268-18948277 chr10:18948266-18948278 chr10:18948277-18948289 chr10:18948278-18948287 chr10:18948267-18948276 chr10:18948274-18948288 chr10:18948277-18948288 chr10:18948267-18948277 chr10:18948279-18948288 chr10:18948266-18948277 chr10:18948263-18948277
14	ELF1	chr10:18947838-18948517	MCF-7	breast:	n/a	n/a
15	POLR2A	chr10:18947127-18948557	HepG2	liver:	n/a	n/a
16	SIN3AK20	chr10:18947819-18949637	MCF-7	breast:	n/a	n/a
17	MYC	chr10:18947099-18949129	K562	blood:	n/a	n/a
18	YY1	chr10:18947829-18948726	GM12878	blood:	n/a	chr10:18948488-18948502 chr10:18948541-18948550
19	GABPA	chr10:18947796-18948574	SK-N-SH	brain:	n/a	n/a
20	ZNF263	chr10:18947846-18949300	HEK293-T-REx	kidney:	n/a	n/a
21	MAX	chr10:18947870-18948492	MCF-7	breast:	n/a	n/a
22	FOSL2	chr10:18947708-18948266	A549	lung:	n/a	n/a
23	SP1	chr10:18947845-18948441	HepG2	liver:	n/a	chr10:18948268-18948277 chr10:18948266-18948278 chr10:18948277-18948289 chr10:18948278-18948287 chr10:18948267-18948276 chr10:18948274-18948288 chr10:18948277-18948288 chr10:18948267-18948277 chr10:18948279-18948288 chr10:18948266-18948277 chr10:18948263-18948277
24	GTF2F1	chr10:18947874-18948444	Hela-S3	cervix:	n/a	n/a
25	GTF2F1	chr10:18947810-18948396	H1-hESC	embryonic stem cell:	n/a	n/a
26	USF1	chr10:18947915-18948425	A549	lung:	n/a	n/a
27	CHD1	chr10:18946998-18949474	GM12878	blood:	n/a	chr10:18948546-18948556 chr10:18948735-18948745
28	RELA	chr10:18947087-18949047	GM19099	blood:	n/a	n/a
29	SP1	chr10:18947857-18948770	GM12878	blood:	n/a	chr10:18948268-18948277 chr10:18948266-18948278 chr10:18948277-18948289 chr10:18948278-18948287 chr10:18948267-18948276 chr10:18948710-18948724 chr10:18948547-18948556 chr10:18948274-18948288 chr10:18948734-18948743 chr10:18948277-18948288 chr10:18948267-18948277 chr10:18948279-18948288 chr10:18948266-18948277 chr10:18948263-18948277
30	FOXM1	chr10:18947780-18948428	GM12878	blood:	n/a	n/a
31	RFX5	chr10:18947490-18948457	GM12878	blood:	n/a	n/a
32	MEF2A	chr10:18947804-18948498	GM12878	blood:	n/a	n/a
33	POLR2A	chr10:18946975-18949205	GM12892	blood:	n/a	n/a
34	MTA3	chr10:18947040-18948556	GM12878	blood:	n/a	n/a
35	ELK1	chr10:18947769-18948752	GM12878	blood:	n/a	n/a
36	POLR2A	chr10:18946806-18949630	K562	blood:	n/a	n/a
37	POLR2A	chr10:18947104-18949176	Raji	blood:	n/a	n/a
38	RELA	chr10:18947818-18948550	GM12892	blood:	n/a	n/a
39	TEAD4	chr10:18947875-18948436	ECC-1	luminal epithelium:	n/a	n/a
40	HEY1	chr10:18946926-18948691	HepG2	liver:	n/a	chr10:18948481-18948496 chr10:18948627-18948642
41	PML	chr10:18947412-18948530	K562	blood:	n/a	n/a
42	FOSL2	chr10:18947913-18948548	HepG2	liver:	n/a	chr10:18948266-18948275
43	RFX5	chr10:18947828-18948637	Hela-S3	cervix:	n/a	n/a
44	POLR2A	chr10:18947831-18948798	MCF-7	breast:	n/a	n/a
45	ARID3A	chr10:18947580-18948518	K562	blood:	n/a	n/a
46	BCL11A	chr10:18947941-18948280	GM12878	blood:	n/a	n/a
47	RELA	chr10:18947224-18949363	GM10847	blood:	n/a	n/a
48	POLR2A	chr10:18947922-18948559	SK-N-MC	brain:	n/a	n/a
49	EP300	chr10:18947832-18948548	GM12878	blood:	n/a	n/a
50	POLR2A	chr10:18947695-18948699	ProgFib	skin:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr10:18938647..18942217-chr10:18945513..18950534,9	MCF-7	breast:
2	chr10:17271770..17274197-chr10:18946668..18948974,2	K562	blood:
3	chr10:18947486..18949622-chr7:100026064..100028896,2	MCF-7	breast:
4	chr10:18937279..18942257-chr10:18944156..18951752,16	MCF-7	breast:

Variant related genes	Relation type
ENSG00000271786	TF binding region
ARL5B	TF binding region
ENSG00000241058	Chromatin interaction
ENSG00000229124	Chromatin interaction
ENSG00000078487	Chromatin interaction
ENSG00000026025	Chromatin interaction
ENSG00000146834	Chromatin interaction

Extended variants
information (count: 54 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:51)

rs_ID	r²[population]
rs10732437	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10741120	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10741131	0.80[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10764587	1.00[ASN][1000 genomes]
rs10829156	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10829157	0.84[AFR][1000 genomes];0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10829199	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1917209	1.00[ASN][1000 genomes]
rs1917823	1.00[ASN][1000 genomes]
rs4316423	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4338439	0.83[AFR][1000 genomes];0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4456162	1.00[ASN][1000 genomes]
rs4475830	1.00[ASN][1000 genomes]
rs4606373	1.00[ASN][1000 genomes]
rs4634984	1.00[ASN][1000 genomes]
rs4636555	1.00[ASN][1000 genomes]
rs4748479	1.00[ASN][1000 genomes]
rs4748493	1.00[ASN][1000 genomes]
rs4748494	1.00[ASN][1000 genomes]
rs4748502	0.91[EUR][1000 genomes]
rs4748504	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4748505	0.95[EUR][1000 genomes]
rs4748507	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62636215	0.89[ASN][1000 genomes]
rs6482534	1.00[ASN][1000 genomes]
rs6482545	0.89[ASN][1000 genomes]
rs6482546	0.80[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs6482565	0.87[EUR][1000 genomes]
rs6482567	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7075678	0.82[AFR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7077786	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7081435	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7082235	1.00[ASN][1000 genomes]
rs7084709	0.83[AFR][1000 genomes];0.90[EUR][1000 genomes]
rs7090926	0.89[ASN][1000 genomes]
rs7093907	0.83[AFR][1000 genomes];0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7095666	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7097534	0.83[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs7098721	1.00[ASN][1000 genomes]
rs7099307	1.00[ASN][1000 genomes]
rs7100884	0.80[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7895709	1.00[ASN][1000 genomes]
rs7895775	1.00[ASN][1000 genomes]
rs7908550	0.80[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7909552	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7911922	1.00[ASN][1000 genomes]
rs7918933	1.00[ASN][1000 genomes]
rs7922241	0.80[EUR][1000 genomes]
rs7923072	0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8181345	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9731044	0.85[EUR][1000 genomes];1.00[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	nsv550042	chr10:18683267-18994583	ZNF genes & repeats Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
2	nsv466762	chr10:18932172-18976659	Enhancers Weak transcription Active TSS Strong transcription Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
3	nsv550121	chr10:18932172-18976659	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:18946600-18948400	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
2	chr10:18946800-18949400	Active TSS	Liver	Liver
3	chr10:18946800-18949600	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
4	chr10:18946800-18949600	Active TSS	Aorta	Aorta
5	chr10:18946800-18949600	Active TSS	Rectal Mucosa Donor 31	rectum
6	chr10:18946800-18949800	Active TSS	Fetal Intestine Small	intestine
7	chr10:18946800-18949800	Active TSS	NHDF-Ad	bronchial
8	chr10:18946800-18950600	Active TSS	GM12878-XiMat	blood
9	chr10:18947000-18948000	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
10	chr10:18947000-18948000	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
11	chr10:18947000-18948000	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
12	chr10:18947000-18948000	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle
13	chr10:18947000-18948000	Flanking Active TSS	NH-A	brain
14	chr10:18947000-18948000	Flanking Active TSS	Osteobl	bone
15	chr10:18947000-18949600	Active TSS	Stomach Mucosa	stomach
16	chr10:18947000-18949800	Active TSS	Breast Myoepithelial Primary Cells	Breast
17	chr10:18947000-18949800	Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
18	chr10:18947000-18949800	Active TSS	Fetal Intestine Large	intestine
19	chr10:18947000-18949800	Active TSS	Psoas Muscle	Psoas
20	chr10:18947000-18949800	Active TSS	Right Atrium	heart
21	chr10:18947000-18950000	Active TSS	Duodenum Smooth Muscle	Duodenum
22	chr10:18947000-18950000	Active TSS	Pancreatic Islets	Pancreatic Islet
23	chr10:18947000-18950200	Active TSS	Colonic Mucosa	Colon
24	chr10:18947000-18950200	Active TSS	HSMM	muscle
25	chr10:18947000-18951200	Active TSS	HUES64 Cell Line	embryonic stem cell
26	chr10:18947200-18948000	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
27	chr10:18947200-18948000	Flanking Active TSS	Primary B cells from cord blood	blood
28	chr10:18947200-18948000	Flanking Active TSS	Primary B cells from peripheral blood	blood
29	chr10:18947200-18948000	Flanking Active TSS	Primary T cells from cord blood	blood
30	chr10:18947200-18948000	Flanking Active TSS	Primary T cells fromperipheralblood	blood
31	chr10:18947200-18948000	Flanking Active TSS	Primary T regulatory cells fromperipheralblood	blood
32	chr10:18947200-18948000	Flanking Active TSS	Primary Natural Killer cells fromperipheralblood	blood
33	chr10:18947200-18949600	Active TSS	ES-WA7 Cell Line	embryonic stem cell
34	chr10:18947200-18949600	Active TSS	Ovary	ovary
35	chr10:18947200-18949800	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
36	chr10:18947200-18949800	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
37	chr10:18947200-18949800	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
38	chr10:18947200-18949800	Active TSS	Fetal Kidney	kidney
39	chr10:18947200-18949800	Active TSS	Fetal Muscle Trunk	muscle
40	chr10:18947200-18949800	Active TSS	Pancreas	Pancrea
41	chr10:18947200-18949800	Active TSS	Right Ventricle	heart
42	chr10:18947200-18950000	Active TSS	Left Ventricle	heart
43	chr10:18947200-18950200	Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
44	chr10:18947200-18950400	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
45	chr10:18947200-18950600	Active TSS	K562	blood
46	chr10:18947400-18948400	Active TSS	Brain Germinal Matrix	brain
47	chr10:18947400-18949000	Active TSS	Rectal Mucosa Donor 29	rectum
48	chr10:18947400-18949000	Active TSS	Spleen	Spleen
49	chr10:18947400-18949400	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell
50	chr10:18947400-18949400	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links