Variant report

Variant	rs829810
Chromosome Location	chr6:110011798-110011799
allele	C/T
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	MXI1	chr6:110011579-110011922	HepG2	liver:	n/a	chr6:110011741-110011756
2	ZMIZ1	chr6:110011571-110012108	K562	blood:	n/a	n/a
3	RFX5	chr6:110011683-110012629	HepG2	liver:	n/a	chr6:110011737-110011752 chr6:110011741-110011750
4	MYC	chr6:110011766-110012625	H1-hESC	embryonic stem cell:	n/a	n/a
5	CHD2	chr6:110011510-110012632	H1-hESC	embryonic stem cell:	n/a	n/a
6	SMARCB1	chr6:110011591-110012953	Hela-S3	cervix:	n/a	n/a
7	POLR2A	chr6:110011604-110011811	H1-hESC	embryonic stem cell:	n/a	n/a
8	CTCF	chr6:110011798-110011806	Spleen_OC	spleen:	n/a	n/a
9	MAX	chr6:110011567-110011826	H1-hESC	embryonic stem cell:	n/a	n/a
10	MAX	chr6:110011632-110013021	ECC-1	luminal epithelium:	n/a	n/a
11	MAX	chr6:110011615-110012615	GM12878	blood:	n/a	n/a
12	POLR2A	chr6:110011677-110012885	HUVEC	blood vessel:	n/a	n/a
13	POLR2A	chr6:110011630-110012990	GM18505	blood:	n/a	n/a
14	SIN3A	chr6:110011677-110012776	GM12878	blood:	n/a	chr6:110012719-110012730
15	TBP	chr6:110011484-110011891	H1-hESC	embryonic stem cell:	n/a	n/a
16	EBF1	chr6:110011507-110012643	GM12878	blood:	n/a	chr6:110011711-110011720 chr6:110011709-110011720
17	EBF1	chr6:110011542-110011844	GM12878	blood:	n/a	chr6:110011711-110011720 chr6:110011709-110011720
18	TAF1	chr6:110011524-110011831	H1-hESC	embryonic stem cell:	n/a	n/a
19	PML	chr6:110011732-110012906	GM12878	blood:	n/a	n/a
20	POLR2A	chr6:110011771-110012803	GM12878	blood:	n/a	n/a
21	RAD21	chr6:110011475-110011812	H1-hESC	embryonic stem cell:	n/a	n/a
22	YY1	chr6:110011627-110012807	GM12878	blood:	n/a	chr6:110012340-110012362 chr6:110012726-110012737
23	TCF12	chr6:110011586-110011847	GM12878	blood:	n/a	n/a
24	BHLHE40	chr6:110011547-110012800	GM12878	blood:	n/a	n/a
25	ZNF143	chr6:110011555-110011934	H1-hESC	embryonic stem cell:	n/a	n/a
26	CHD2	chr6:110011712-110012932	Hela-S3	cervix:	n/a	chr6:110012873-110012880
27	MAX	chr6:110011752-110012997	H1-hESC	embryonic stem cell:	n/a	n/a
28	YY1	chr6:110011756-110012847	SK-N-SH	brain:	n/a	chr6:110012340-110012362 chr6:110012726-110012737
29	RAD21	chr6:110011574-110012880	H1-hESC	embryonic stem cell:	n/a	n/a
30	CCNT2	chr6:110011549-110011857	K562	blood:	n/a	n/a
31	KAP1	chr6:110011729-110013017	HEK293	kidney:	n/a	n/a
32	ZEB1	chr6:110011500-110011870	GM12878	blood:	n/a	chr6:110011668-110011677
33	TCF12	chr6:110011597-110011922	H1-hESC	embryonic stem cell:	n/a	n/a
34	POLR2A	chr6:110011678-110012933	GM19193	blood:	n/a	n/a
35	POLR2A	chr6:110011643-110012778	HUVEC	blood vessel:	n/a	n/a
36	SRF	chr6:110011658-110012957	MCF-7	breast:	n/a	chr6:110011782-110011792 chr6:110012450-110012460 chr6:110011918-110011935
37	CHD2	chr6:110011732-110012976	GM12878	blood:	n/a	chr6:110012873-110012880
38	ATF2	chr6:110011764-110012271	H1-hESC	embryonic stem cell:	n/a	n/a
39	MAZ	chr6:110011376-110013013	IMR90	lung:	n/a	n/a
40	E2F6	chr6:110011621-110012921	K562	blood:	n/a	chr6:110012873-110012880 chr6:110012468-110012477
41	YY1	chr6:110011477-110011843	H1-hESC	embryonic stem cell:	n/a	n/a
42	POLR2A	chr6:110011312-110012900	H1-hESC	embryonic stem cell:	n/a	n/a
43	HDAC2	chr6:110011528-110012038	H1-hESC	embryonic stem cell:	n/a	n/a
44	MXI1	chr6:110011533-110012542	H1-hESC	embryonic stem cell:	n/a	chr6:110011741-110011756
45	MAX	chr6:110011753-110012800	A549	lung:	n/a	n/a
46	POLR2A	chr6:110011781-110012974	PBDE	blood:	n/a	n/a
47	POLR2A	chr6:110011668-110012755	HepG2	liver:	n/a	n/a
48	SIN3AK20	chr6:110011481-110012953	H1-hESC	embryonic stem cell:	n/a	n/a
49	POLR2A	chr6:110011573-110011868	H1-hESC	embryonic stem cell:	n/a	n/a
50	SIN3A	chr6:110011432-110013084	H1-hESC	embryonic stem cell:	n/a	chr6:110012719-110012730

Variant related genes	Relation type
FIG4	TF binding region
AK9	TF binding region

Extended variants
information (count: 88 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:83)

rs_ID	r²[population]
rs10872036	0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10872037	0.82[AFR][1000 genomes];0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10872038	0.82[AFR][1000 genomes];0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1096137	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1096141	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1103996	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11153186	0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11153196	0.86[AFR][1000 genomes];0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1115978	0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12175588	0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12191099	0.86[AFR][1000 genomes];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12194431	0.82[ASN][1000 genomes]
rs12209401	0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12216333	0.88[ASN][1000 genomes]
rs1321206	0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1321208	0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1406955	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17070673	0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1923057	0.91[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2025149	0.83[AFR][1000 genomes];0.99[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2145145	0.87[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2884130	0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs3799852	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs3823234	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4945834	0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4945838	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4946985	0.86[AFR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4946990	0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4947005	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4947007	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4947013	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4947014	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4947020	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs62435962	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6899688	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6899915	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6906729	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6912209	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6921615	0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6933962	0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6936853	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6941211	0.99[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7757153	0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7757895	0.86[AFR][1000 genomes];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7759120	0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7763229	0.91[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7764711	0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7770807	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7771150	0.99[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7772817	0.82[AFR][1000 genomes];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7775414	0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs829811	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs829812	0.84[AMR][1000 genomes];0.80[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs865503	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs866685	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9285400	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9320293	0.82[AFR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9320301	0.86[AFR][1000 genomes];0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9372223	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9374104	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9374105	0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9374111	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9374112	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9374120	0.83[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs9384712	0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9384719	0.91[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9386811	0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9386815	0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9386819	0.86[AFR][1000 genomes];0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9386822	0.86[AFR][1000 genomes];0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9386828	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9386829	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9398210	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9398212	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9400292	0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9400298	0.86[AFR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9400302	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9480972	0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9480980	0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9487161	0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9487181	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9487182	0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9487211	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][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	nsv949475	chr6:109907936-110160501	Weak transcription Enhancers ZNF genes & repeats Active TSS Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	nsv933105	chr6:109933270-110064342	ZNF genes & repeats Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS Enhancers Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
3	nsv817322	chr6:109933272-110070574	Strong transcription Enhancers Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
4	nsv830769	chr6:109944334-110078120	Enhancers Strong transcription Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
5	nsv604485	chr6:109959269-110054486	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	5 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	chr6:110010800-110013600	Active TSS	Stomach Smooth Muscle	stomach
2	chr6:110011000-110011800	Flanking Active TSS	Primary T cells from cord blood	blood
3	chr6:110011000-110011800	Flanking Active TSS	Dnd41	blood
4	chr6:110011000-110012200	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
5	chr6:110011000-110013000	Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
6	chr6:110011000-110013400	Active TSS	Pancreatic Islets	Pancreatic Islet
7	chr6:110011000-110013600	Active TSS	H1 Cell Line	embryonic stem cell
8	chr6:110011000-110013600	Active TSS	iPS-20b Cell Line	embryonic stem cell
9	chr6:110011000-110013600	Active TSS	Rectal Mucosa Donor 29	rectum
10	chr6:110011000-110013800	Active TSS	HUES64 Cell Line	embryonic stem cell
11	chr6:110011200-110012000	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
12	chr6:110011200-110012000	Flanking Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
13	chr6:110011200-110012000	Active TSS	Brain Germinal Matrix	brain
14	chr6:110011200-110012200	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
15	chr6:110011200-110012800	Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
16	chr6:110011200-110012800	Active TSS	Duodenum Mucosa	Duodenum
17	chr6:110011200-110013000	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
18	chr6:110011200-110013000	Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
19	chr6:110011200-110013000	Active TSS	Breast Myoepithelial Primary Cells	Breast
20	chr6:110011200-110013000	Active TSS	Brain Anterior Caudate	brain
21	chr6:110011200-110013000	Active TSS	Colon Smooth Muscle	Colon
22	chr6:110011200-110013000	Active TSS	Duodenum Smooth Muscle	Duodenum
23	chr6:110011200-110013200	Active TSS	Brain Cingulate Gyrus	brain
24	chr6:110011200-110013200	Active TSS	Fetal Brain Male	brain
25	chr6:110011200-110013200	Active TSS	Fetal Intestine Small	intestine
26	chr6:110011200-110013200	Active TSS	Psoas Muscle	Psoas
27	chr6:110011200-110013400	Active TSS	HUES48 Cell Line	embryonic stem cell
28	chr6:110011200-110013400	Active TSS	NHLF	lung
29	chr6:110011200-110013600	Active TSS	iPS-18 Cell Line	embryonic stem cell
30	chr6:110011200-110013600	Active TSS	Fetal Kidney	kidney
31	chr6:110011200-110015000	Flanking Active TSS	Primary B cells from cord blood	blood
32	chr6:110011400-110011800	Flanking Active TSS	Primary T cells fromperipheralblood	blood
33	chr6:110011400-110011800	Flanking Active TSS	Primary T helper memory cells from peripheral blood 1	blood
34	chr6:110011400-110011800	Flanking Active TSS	Primary T helper 17 cells PMA-I stimulated	--
35	chr6:110011400-110011800	Flanking Active TSS	Primary T regulatory cells fromperipheralblood	blood
36	chr6:110011400-110011800	Flanking Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
37	chr6:110011400-110011800	Flanking Active TSS	Primary Natural Killer cells fromperipheralblood	blood
38	chr6:110011400-110011800	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
39	chr6:110011400-110011800	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
40	chr6:110011400-110011800	Flanking Active TSS	Adipose Nuclei	Adipose
41	chr6:110011400-110011800	Flanking Active TSS	Liver	Liver
42	chr6:110011400-110011800	Flanking Active TSS	Fetal Adrenal Gland	Adrenal Gland
43	chr6:110011400-110011800	Flanking Active TSS	Fetal Muscle Leg	muscle
44	chr6:110011400-110011800	Flanking Active TSS	Placenta	Placenta
45	chr6:110011400-110011800	Flanking Active TSS	Fetal Thymus	thymus
46	chr6:110011400-110011800	Flanking Active TSS	Skeletal Muscle Male	skeletal muscle
47	chr6:110011400-110011800	Flanking Active TSS	Thymus	Thymus
48	chr6:110011400-110011800	Flanking Active TSS	NH-A	brain
49	chr6:110011400-110012000	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
50	chr6:110011400-110012000	Flanking Active TSS	Monocytes-CD14+_RO01746	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links