Variant report

Variant	rs611846
Chromosome Location	chr6:35995527-35995528
allele	G/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	SRF	chr6:35995106-35995817	ECC-1	luminal epithelium:	n/a	chr6:35995484-35995497
2	ATF3	chr6:35995441-35995723	K562	blood:	n/a	n/a
3	POLR2A	chr6:35995199-35996173	GM18951	blood:	n/a	n/a
4	TAF1	chr6:35995392-35996126	GM12878	blood:	n/a	n/a
5	PAX5	chr6:35995166-35995986	GM12878	blood:	n/a	chr6:35995339-35995348
6	MAX	chr6:35995171-35995866	K562	blood:	n/a	n/a
7	SIN3AK20	chr6:35995170-35995990	PANC-1	pancreas:	n/a	n/a
8	ETS1	chr6:35995055-35996261	K562	blood:	n/a	chr6:35995434-35995447 chr6:35995426-35995435 chr6:35995531-35995540 chr6:35995467-35995478
9	SRF	chr6:35995211-35995657	HepG2	liver:	n/a	chr6:35995484-35995497
10	RELA	chr6:35995169-35995772	GM19099	blood:	n/a	n/a
11	POLR2A	chr6:35995190-35996288	HepG2	liver:	n/a	n/a
12	FOS	chr6:35995221-35995594	MCF10A-Er-Src	breast:	n/a	n/a
13	TAF1	chr6:35995151-35995807	MCF-7	breast:	n/a	n/a
14	POLR2A	chr6:35995080-35995839	PFSK-1	brain:	n/a	n/a
15	POLR2A	chr6:35995215-35995849	GM12891	blood:	n/a	n/a
16	SRF	chr6:35994977-35995944	HCT-116	colon:	n/a	chr6:35995484-35995497
17	STAT1	chr6:35995201-35995823	GM12878	blood:	n/a	chr6:35995342-35995354
18	HEY1	chr6:35995094-35996123	HepG2	liver:	n/a	chr6:35995913-35995928
19	CTCF	chr6:35995054-35995688	MCF-7	breast:	n/a	n/a
20	RAD21	chr6:35995099-35995701	IMR90	lung:	n/a	n/a
21	POLR2A	chr6:35995106-35995835	PANC-1	pancreas:	n/a	n/a
22	TBL1XR1	chr6:35995140-35995771	GM12878	blood:	n/a	n/a
23	MYBL2	chr6:35995010-35995867	HepG2	liver:	n/a	n/a
24	RAD21	chr6:35995035-35995822	H1-hESC	embryonic stem cell:	n/a	n/a
25	RCOR1	chr6:35995149-35996087	GM12878	blood:	n/a	n/a
26	MAX	chr6:35995081-35995807	SK-N-SH	brain:	n/a	n/a
27	MYBL2	chr6:35994971-35996396	HepG2	liver:	n/a	n/a
28	POLR2A	chr6:35995142-35996246	HUVEC	blood vessel:	n/a	n/a
29	FOXM1	chr6:35995001-35995786	GM12878	blood:	n/a	n/a
30	SIN3AK20	chr6:35995030-35996409	MCF-7	breast:	n/a	n/a
31	FOSL2	chr6:35995135-35995834	HepG2	liver:	n/a	n/a
32	TEAD4	chr6:35995125-35995681	K562	blood:	n/a	n/a
33	EP300	chr6:35995208-35995926	GM12878	blood:	n/a	chr6:35995759-35995775 chr6:35995836-35995852 chr6:35995300-35995316 chr6:35995755-35995771
34	ZNF263	chr6:35995161-35996417	HEK293-T-REx	kidney:	n/a	chr6:35995439-35995448
35	ATF1	chr6:35995180-35995691	K562	blood:	n/a	n/a
36	POLR2A	chr6:35995200-35996864	GM18505	blood:	n/a	n/a
37	POLR2A	chr6:35995454-35995882	A549	lung:	n/a	n/a
38	SPI1	chr6:35995173-35995832	HL-60	blood:	n/a	n/a
39	MYC	chr6:35995225-35995667	MCF-7	breast:	n/a	n/a
40	RAD21	chr6:35995088-35995549	A549	lung:	n/a	n/a
41	ZBTB33	chr6:35995241-35995704	HepG2	liver:	n/a	chr6:35995426-35995435 chr6:35995531-35995540 chr6:35995529-35995539 chr6:35995529-35995544 chr6:35995427-35995437
42	POLR2A	chr6:35995178-35996132	GM15510	blood:	n/a	n/a
43	POU2F2	chr6:35995107-35995841	GM12878	blood:	n/a	n/a
44	FOS	chr6:35995271-35995571	MCF10A-Er-Src	breast:	n/a	n/a
45	POLR2A	chr6:35995235-35996383	MCF-7	breast:	n/a	n/a
46	RAD21	chr6:35995082-35995664	ECC-1	luminal epithelium:	n/a	n/a
47	RELA	chr6:35995180-35995808	GM10847	blood:	n/a	n/a
48	SRF	chr6:35995369-35995620	GM12878	blood:	n/a	chr6:35995484-35995497
49	KAP1	chr6:35995123-35995831	HEK293	kidney:	n/a	n/a
50	YY1	chr6:35995124-35995767	H1-hESC	embryonic stem cell:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr11:62430663..62433380-chr6:35994496..35996119,2	MCF-7	breast:
2	chr6:35886849..35889245-chr6:35993978..35995751,2	MCF-7	breast:
3	chr6:35992919..35998420-chr6:36043527..36047632,6	K562	blood:
4	chr6:35995409..35998293-chr6:36169969..36172961,2	K562	blood:
5	chr6:35993989..35997402-chr6:36163188..36166883,8	MCF-7	breast:
6	chr6:35992707..35998254-chr6:36162958..36166458,7	K562	blood:
7	chr6:35957292..35959844-chr6:35995427..35996953,2	MCF-7	breast:
8	chr6:35994574..35998335-chr6:36060182..36063184,5	MCF-7	breast:
9	chr6:35887479..35890120-chr6:35993309..35995768,2	K562	blood:
10	chr6:35991723..36001946-chr6:36059635..36067870,13	K562	blood:
11	chr6:35993265..35998448-chr6:36161633..36166981,11	K562	blood:
12	chr6:35994000..35997973-chr6:36041645..36047090,8	K562	blood:
13	chr6:35994813..35995763-chr6:36043484..36044201,2	K562	blood:
14	chr6:35994747..35997169-chr6:36562025..36564113,2	K562	blood:

Variant related genes	Relation type
MAPK14	TF binding region
SLC26A8	TF binding region
ENSG00000112062	Chromatin interaction
ENSG00000206597	Chromatin interaction
ENSG00000246982	Chromatin interaction
ENSG00000271304	Chromatin interaction
ENSG00000214756	Chromatin interaction
ENSG00000237719	Chromatin interaction
ENSG00000096070	Chromatin interaction
ENSG00000255432	Chromatin interaction
ENSG00000162194	Chromatin interaction
ENSG00000112081	Chromatin interaction
ENSG00000096063	Chromatin interaction

Extended variants
information (count: 29 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs2237095	1.00[EUR][1000 genomes]
rs2815805	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2859144	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs584884	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58604706	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs596446	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs603869	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs612049	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61764190	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs620491	1.00[EUR][1000 genomes]
rs620493	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs626386	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs686431	1.00[EUR][1000 genomes]
rs6940239	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7742178	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7750653	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7764721	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7768950	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7768956	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7770710	1.00[EUR][1000 genomes]
rs7774786	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7774934	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9462156	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9462157	1.00[EUR][1000 genomes]
rs9470200	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9470207	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9470217	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3363467	chr6:35820920-36222197	Enhancers Strong transcription Bivalent Enhancer Active TSS Genic enhancers Flanking Active TSS Weak transcription Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
2	nsv528432	chr6:35958871-36035354	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	15 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:35992600-35995600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr6:35992800-35995600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr6:35994200-35995600	Weak transcription	Fetal Heart	heart
4	chr6:35994400-35997600	Active TSS	ES-I3 Cell Line	embryonic stem cell
5	chr6:35994600-35997400	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
6	chr6:35994800-35997800	Active TSS	Hela-S3	cervix
7	chr6:35995000-35995600	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
8	chr6:35995000-35995600	Active TSS	Skeletal Muscle Male	skeletal muscle
9	chr6:35995000-35995600	Active TSS	HepG2	liver
10	chr6:35995000-35995800	Active TSS	Brain Germinal Matrix	brain
11	chr6:35995000-35996000	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
12	chr6:35995000-35996000	Active TSS	Skeletal Muscle Female	skeletal muscle
13	chr6:35995000-35996800	Active TSS	HUES48 Cell Line	embryonic stem cell
14	chr6:35995000-35997000	Active TSS	HUES64 Cell Line	embryonic stem cell
15	chr6:35995000-35997000	Active TSS	Primary T cells from cord blood	blood
16	chr6:35995000-35997200	Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
17	chr6:35995000-35997200	Active TSS	Cortex derived primary cultured neurospheres	brain
18	chr6:35995000-35997200	Active TSS	Rectal Mucosa Donor 31	rectum
19	chr6:35995000-35997400	Active TSS	ES-WA7 Cell Line	embryonic stem cell
20	chr6:35995000-35997400	Active TSS	H1 Cell Line	embryonic stem cell
21	chr6:35995000-35997400	Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
22	chr6:35995000-35997400	Active TSS	iPS-15b Cell Line	embryonic stem cell
23	chr6:35995000-35997400	Active TSS	Breast Myoepithelial Primary Cells	Breast
24	chr6:35995000-35997400	Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
25	chr6:35995000-35997400	Active TSS	Brain Anterior Caudate	brain
26	chr6:35995000-35997400	Active TSS	Brain Cingulate Gyrus	brain
27	chr6:35995000-35997400	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
28	chr6:35995000-35997400	Active TSS	Duodenum Mucosa	Duodenum
29	chr6:35995000-35997400	Active TSS	Fetal Brain Female	brain
30	chr6:35995000-35997400	Active TSS	HUVEC	blood vessel
31	chr6:35995000-35997400	Active TSS	NHEK	skin
32	chr6:35995000-35997600	Active TSS	Colonic Mucosa	Colon
33	chr6:35995000-35997600	Active TSS	Fetal Kidney	kidney
34	chr6:35995000-35997800	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
35	chr6:35995000-35997800	Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
36	chr6:35995000-35997800	Active TSS	Fetal Intestine Small	intestine
37	chr6:35995000-35997800	Active TSS	HSMMtube	muscle
38	chr6:35995000-35998000	Active TSS	HUES6 Cell Line	embryonic stem cell
39	chr6:35995000-35998000	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
40	chr6:35995000-35998000	Active TSS	Brain Inferior Temporal Lobe	brain
41	chr6:35995000-35998000	Active TSS	A549	lung
42	chr6:35995000-35998000	Active TSS	HSMM	muscle
43	chr6:35995000-35998200	Active TSS	Stomach Smooth Muscle	stomach
44	chr6:35995000-35998200	Active TSS	HMEC	breast
45	chr6:35995000-35998200	Active TSS	NHLF	lung
46	chr6:35995000-35998400	Active TSS	Psoas Muscle	Psoas
47	chr6:35995000-35998400	Active TSS	Rectal Smooth Muscle	rectum
48	chr6:35995000-35998400	Active TSS	GM12878-XiMat	blood
49	chr6:35995000-35998600	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
50	chr6:35995000-35998600	Active TSS	Muscle Satellite Cultured Cells	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links