Variant report

Variant	rs73602752
Chromosome Location	chr6:149809926-149809927
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	GATA3	chr6:149809796-149810436	MCF-7	breast:	n/a	chr6:149810021-149810029 chr6:149810032-149810043
2	GATA3	chr6:149809830-149810204	T-47D	breast:	n/a	chr6:149810021-149810029 chr6:149810032-149810043

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:149806502..149808230-chr6:149808327..149810146,3	MCF-7	breast:

Variant related genes	Relation type
ZC3H12D	TF binding region

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs11963941	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11964790	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11964826	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17087440	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17087477	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17087520	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17087666	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs35077558	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs35515786	0.83[AFR][1000 genomes]
rs56859590	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57065071	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57925355	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61666489	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6926725	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6926874	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6938702	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73602754	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73604736	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73604737	0.88[AFR][1000 genomes]
rs73604743	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73604754	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73604776	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73604778	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73604779	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73604781	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73604784	0.83[AFR][1000 genomes]
rs73604790	0.83[AFR][1000 genomes]
rs73604795	0.83[AFR][1000 genomes]
rs73604799	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73606715	0.83[AFR][1000 genomes]
rs73606737	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73606738	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7746594	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7771139	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7773304	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9689443	0.83[AFR][1000 genomes]
rs9766104	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9767369	0.95[AFR][1000 genomes];1.00[AMR][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	nsv530444	chr6:149654540-149848997	Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
2	esv1832313	chr6:149789511-149840750	Weak transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Enhancers Bivalent Enhancer Genic enhancers Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:39 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:149804400-149824600	Weak transcription	Brain Hippocampus Middle	brain
2	chr6:149806400-149832000	Weak transcription	HSMMtube	muscle
3	chr6:149806400-149844800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
4	chr6:149806600-149810000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
5	chr6:149806800-149825200	Weak transcription	HSMM	muscle
6	chr6:149806800-149832400	Weak transcription	HUES6 Cell Line	embryonic stem cell
7	chr6:149807000-149811200	Weak transcription	Right Atrium	heart
8	chr6:149807000-149812200	Enhancers	Primary B cells from peripheral blood	blood
9	chr6:149807000-149814000	Weak transcription	Rectal Mucosa Donor 29	rectum
10	chr6:149807000-149814600	Weak transcription	Fetal Thymus	thymus
11	chr6:149807000-149832200	Weak transcription	Lung	lung
12	chr6:149807000-149849000	Weak transcription	Gastric	stomach
13	chr6:149807200-149810200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
14	chr6:149807200-149811200	Enhancers	GM12878-XiMat	blood
15	chr6:149807200-149811600	Enhancers	Primary B cells from cord blood	blood
16	chr6:149807200-149815600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
17	chr6:149807200-149824800	Weak transcription	Primary monocytes fromperipheralblood	blood
18	chr6:149807200-149832000	Weak transcription	Sigmoid Colon	Sigmoid Colon
19	chr6:149807200-149835000	Weak transcription	Spleen	Spleen
20	chr6:149807200-149842600	Weak transcription	Skeletal Muscle Male	skeletal muscle
21	chr6:149807600-149813800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
22	chr6:149808000-149814000	Weak transcription	Primary T helper cells fromperipheralblood	blood
23	chr6:149809000-149810000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
24	chr6:149809600-149811200	Enhancers	Fetal Intestine Large	intestine
25	chr6:149809600-149811200	Enhancers	HepG2	liver
26	chr6:149809600-149811400	Enhancers	Fetal Intestine Small	intestine
27	chr6:149809800-149810000	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
28	chr6:149809800-149810000	Enhancers	Left Ventricle	heart
29	chr6:149809800-149810200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
30	chr6:149809800-149810200	Bivalent Enhancer	Foreskin Fibroblast Primary Cells skin01	Skin
31	chr6:149809800-149810200	Enhancers	Fetal Muscle Trunk	muscle
32	chr6:149809800-149810200	Enhancers	Stomach Mucosa	stomach
33	chr6:149809800-149810400	Enhancers	Rectal Mucosa Donor 31	rectum
34	chr6:149809800-149810600	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
35	chr6:149809800-149810800	Enhancers	Primary T regulatory cells fromperipheralblood	blood
36	chr6:149809800-149810800	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
37	chr6:149809800-149810800	Enhancers	Esophagus	oesophagus
38	chr6:149809800-149811200	Enhancers	Primary T helper cells PMA-I stimulated	--
39	chr6:149809800-149811400	Enhancers	Primary T helper memory cells from peripheral blood 1	blood

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