Variant report

Variant	rs2532690
Chromosome Location	chr10:118033689-118033690
allele	C/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	CTCF	chr10:118033623-118033776	SK-N-SH_RA	brain:	n/a	n/a
2	POLR2A	chr10:118033459-118034357	ProgFib	skin:	n/a	n/a
3	RAD21	chr10:118033611-118033810	SK-N-SH_RA	brain:	n/a	n/a
4	MAZ	chr10:118031041-118033880	IMR90	lung:	n/a	chr10:118032586-118032596 chr10:118033682-118033691 chr10:118033306-118033315 chr10:118032757-118032767
5	CTCF	chr10:118033620-118033770	BJ	skin:	n/a	n/a
6	CTCF	chr10:118033627-118033782	MCF-7	breast:	n/a	n/a
7	POLR2A	chr10:118033613-118034261	PFSK-1	brain:	n/a	n/a
8	CTCF	chr10:118033560-118033710	RPTEC	kidney:	n/a	n/a
9	RAD21	chr10:118033473-118034285	H1-hESC	embryonic stem cell:	n/a	n/a
10	CTCF	chr10:118033635-118033806	Fibrobl	skin:	n/a	n/a
11	CTCF	chr10:118033600-118033750	AG04449	skin:	n/a	n/a
12	CTCF	chr10:118033680-118033830	HRPEpiC	eye:	n/a	n/a
13	MAX	chr10:118031480-118034385	A549	lung:	n/a	chr10:118032586-118032596 chr10:118034183-118034199 chr10:118033682-118033691 chr10:118033306-118033315 chr10:118032757-118032767
14	CTCF	chr10:118033623-118033807	MCF-7	breast:	n/a	n/a
15	CTCF	chr10:118033640-118033790	HBMEC	blood vessel:	n/a	n/a
16	CTCF	chr10:118033660-118033810	WERI-Rb-1	eye:	n/a	n/a
17	CTCF	chr10:118033617-118033809	MCF-7	breast:	n/a	n/a
18	POLR2A	chr10:118031272-118034347	MCF-7	breast:	n/a	n/a
19	CTCF	chr10:118033635-118033782	ProgFib	skin:	n/a	n/a
20	CTCF	chr10:118033687-118033762	H1-hESC	embryonic stem cell:	n/a	n/a
21	CTCF	chr10:118033600-118033750	AG10803	skin:	n/a	n/a
22	CTCF	chr10:118033600-118033750	HFF	foreskin:	n/a	n/a
23	CTCF	chr10:118033680-118033830	HFF-Myc	foreskin:	n/a	n/a
24	RAD21	chr10:118033623-118033903	SK-N-SH_RA	brain:	n/a	n/a
25	POLR2A	chr10:118022229-118034776	MCF-7	breast:	n/a	n/a
26	ZNF263	chr10:118031708-118034525	HEK293-T-REx	kidney:	n/a	chr10:118034011-118034020 chr10:118032764-118032773 chr10:118034005-118034026 chr10:118034014-118034023
27	POLR2A	chr10:118032505-118033854	H1-neurons	neurons:	n/a	n/a
28	POLR2A	chr10:118032796-118034270	MCF-7	breast:	n/a	n/a
29	CTCF	chr10:118033620-118033770	HRE	kidney:	n/a	n/a
30	CTCF	chr10:118033620-118033770	HRPEpiC	eye:	n/a	n/a
31	SIN3AK20	chr10:118029149-118034735	MCF-7	breast:	n/a	n/a
32	CTCF	chr10:118033600-118033750	HRE	kidney:	n/a	n/a
33	SIN3AK20	chr10:118033492-118034514	MCF-7	breast:	n/a	n/a
34	SIN3A	chr10:118033667-118034371	H1-hESC	embryonic stem cell:	n/a	n/a
35	CTCF	chr10:118033580-118033730	HA-sp	spinal cord:	n/a	n/a
36	CTCF	chr10:118033644-118033809	Gliobla	brain:	n/a	n/a
37	CTCF	chr10:118033687-118033887	IMR90	lung:	n/a	n/a
38	CTCF	chr10:118033620-118033770	HBMEC	blood vessel:	n/a	n/a
39	CTCF	chr10:118033660-118033810	AG09319	gingival:	n/a	n/a
40	CTCF	chr10:118033620-118033770	WERI-Rb-1	eye:	n/a	n/a
41	CTCF	chr10:118033620-118033770	AG09319	gingival:	n/a	n/a
42	CTCF	chr10:118033640-118033790	HPF	lung:	n/a	n/a
43	RAD21	chr10:118033437-118034289	H1-hESC	embryonic stem cell:	n/a	n/a
44	CTCF	chr10:118033620-118033770	AG04449	skin:	n/a	n/a
45	CTCF	chr10:118033660-118033810	BJ	skin:	n/a	n/a
46	CTCF	chr10:118033640-118033790	HMEC	breast:	n/a	n/a
47	CTCF	chr10:118033674-118033751	NHEK	skin:	n/a	n/a
48	CTCF	chr10:118033620-118033770	HCPEpiC	choroid plexus:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr10:117858148..117861915-chr10:118033235..118035636,3	MCF-7	breast:
2	chr10:117851031..117852800-chr10:118033043..118034663,2	MCF-7	breast:
3	chr10:117759144..117761162-chr10:118033564..118036485,2	MCF-7	breast:
4	chr10:117465313..117467973-chr10:118033324..118035057,2	MCF-7	breast:

Variant related genes	Relation type
GFRA1	TF binding region

Extended variants
information (count: 19 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs2532691	1.00[AMR][1000 genomes]
rs2532693	1.00[AMR][1000 genomes]
rs2532694	1.00[AMR][1000 genomes]
rs2532695	1.00[AMR][1000 genomes]
rs2577353	1.00[AMR][1000 genomes]
rs2577359	1.00[AMR][1000 genomes]
rs2577364	1.00[AMR][1000 genomes]
rs4285797	1.00[AMR][1000 genomes]
rs4309072	1.00[AMR][1000 genomes]
rs4333937	1.00[AMR][1000 genomes]
rs4341452	1.00[AMR][1000 genomes]
rs4421670	1.00[AMR][1000 genomes]
rs4525139	1.00[AMR][1000 genomes]
rs4525140	1.00[AMR][1000 genomes]
rs4579854	1.00[AMR][1000 genomes]
rs7079449	1.00[AMR][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	esv3449389	chr10:117806874-118102404	Active TSS Enhancers Bivalent Enhancer Strong transcription Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	nsv832000	chr10:117944492-118116253	Enhancers Flanking Active TSS Bivalent/Poised TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Weak transcription ZNF genes & repeats Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	esv3332511	chr10:118030012-118035110	Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Enhancers Active TSS Weak transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:100 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:118029600-118034200	Bivalent/Poised TSS	iPS-15b Cell Line	embryonic stem cell
2	chr10:118030000-118034200	Bivalent/Poised TSS	HUES48 Cell Line	embryonic stem cell
3	chr10:118030000-118034400	Active TSS	Rectal Smooth Muscle	rectum
4	chr10:118030000-118034600	Bivalent/Poised TSS	Duodenum Smooth Muscle	Duodenum
5	chr10:118030200-118033800	Active TSS	HSMM	muscle
6	chr10:118030200-118033800	Active TSS	HSMMtube	muscle
7	chr10:118030200-118034000	Active TSS	Muscle Satellite Cultured Cells	--
8	chr10:118030200-118034200	Bivalent/Poised TSS	HUES64 Cell Line	embryonic stem cell
9	chr10:118030200-118034200	Bivalent/Poised TSS	iPS DF 6.9 Cell Line	embryonic stem cell
10	chr10:118030200-118034400	Bivalent/Poised TSS	ES-I3 Cell Line	embryonic stem cell
11	chr10:118030200-118034400	Bivalent/Poised TSS	H9 Cell Line	embryonic stem cell
12	chr10:118030200-118034400	Bivalent/Poised TSS	iPS-20b Cell Line	embryonic stem cell
13	chr10:118030200-118034400	Bivalent/Poised TSS	Colon Smooth Muscle	Colon
14	chr10:118030200-118034600	Bivalent/Poised TSS	HUES6 Cell Line	embryonic stem cell
15	chr10:118030400-118033800	Bivalent/Poised TSS	Left Ventricle	heart
16	chr10:118030400-118034200	Bivalent/Poised TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
17	chr10:118030400-118034200	Bivalent/Poised TSS	iPS-18 Cell Line	embryonic stem cell
18	chr10:118030400-118034200	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
19	chr10:118030400-118034200	Flanking Bivalent TSS/Enh	Primary hematopoietic stem cells G-CSF-mobilized Male	--
20	chr10:118030400-118034200	Flanking Bivalent TSS/Enh	Ganglion Eminence derived primary cultured neurospheres	brain
21	chr10:118030400-118034400	Bivalent/Poised TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
22	chr10:118030400-118034600	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
23	chr10:118030600-118034000	Bivalent/Poised TSS	Rectal Mucosa Donor 29	rectum
24	chr10:118030600-118034200	Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
25	chr10:118030600-118034200	Active TSS	Ovary	ovary
26	chr10:118030600-118034400	Active TSS	Right Atrium	heart
27	chr10:118030600-118034600	Bivalent/Poised TSS	H1 Cell Line	embryonic stem cell
28	chr10:118030800-118033800	Flanking Active TSS	Primary hematopoietic stem cells	blood
29	chr10:118030800-118034000	Flanking Bivalent TSS/Enh	Cortex derived primary cultured neurospheres	brain
30	chr10:118030800-118034200	Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
31	chr10:118030800-118034200	Bivalent/Poised TSS	ES-UCSF4 Cell Line	embryonic stem cell
32	chr10:118030800-118034200	Flanking Bivalent TSS/Enh	Primary hematopoietic stem cells G-CSF-mobilized Female	--
33	chr10:118030800-118034200	Flanking Bivalent TSS/Enh	Foreskin Keratinocyte Primary Cells skin03	Skin
34	chr10:118030800-118034200	Bivalent/Poised TSS	Thymus	Thymus
35	chr10:118030800-118034400	Active TSS	Aorta	Aorta
36	chr10:118030800-118034400	Flanking Bivalent TSS/Enh	Fetal Adrenal Gland	Adrenal Gland
37	chr10:118031000-118034000	Bivalent/Poised TSS	Primary T cells from cord blood	blood
38	chr10:118031000-118034200	Flanking Bivalent TSS/Enh	Foreskin Keratinocyte Primary Cells skin02	Skin
39	chr10:118031000-118034400	Active TSS	H1 Derived Mesenchymal Stem Cells	ES cell derived
40	chr10:118031000-118034400	Bivalent/Poised TSS	A549	lung
41	chr10:118031000-118034600	Active TSS	Brain Anterior Caudate	brain
42	chr10:118031200-118034000	Bivalent/Poised TSS	Duodenum Mucosa	Duodenum
43	chr10:118031400-118034000	Bivalent Enhancer	Primary Natural Killer cells fromperipheralblood	blood
44	chr10:118031600-118034600	Active TSS	NHLF	lung
45	chr10:118031600-118034800	Bivalent/Poised TSS	Fetal Brain Female	brain
46	chr10:118031800-118034200	Bivalent Enhancer	Primary T cells fromperipheralblood	blood
47	chr10:118032000-118034000	Bivalent/Poised TSS	Fetal Stomach	stomach
48	chr10:118032000-118034200	Flanking Bivalent TSS/Enh	Adipose Nuclei	Adipose
49	chr10:118032000-118034400	Bivalent/Poised TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
50	chr10:118032200-118034200	Active TSS	Brain Substantia Nigra	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links