Variant report

Variant	rs73033407
Chromosome Location	chr7:2878857-2878858
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr7:2878232..2880029-chr7:2884178..2886023,2	MCF-7	breast:
2	chr7:2726313..2732670-chr7:2878755..2886203,10	MCF-7	breast:

Variant related genes	Relation type
ENSG00000174945	Chromatin interaction

Extended variants
information (count: 60 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs11761804	0.82[AMR][1000 genomes]
rs11764225	0.81[AMR][1000 genomes]
rs11765386	0.87[AMR][1000 genomes]
rs11765473	0.87[AMR][1000 genomes]
rs11765726	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11766514	0.87[AMR][1000 genomes]
rs11768001	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs11769302	0.84[AMR][1000 genomes]
rs11769532	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs11769669	0.87[AMR][1000 genomes]
rs11770451	0.84[AMR][1000 genomes]
rs11770710	0.87[AMR][1000 genomes]
rs11772176	0.89[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs12540539	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs17132624	0.84[AMR][1000 genomes]
rs17132665	0.82[AMR][1000 genomes]
rs17132741	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs17132744	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs17241904	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs28706013	0.89[AMR][1000 genomes]
rs35450876	0.87[AMR][1000 genomes]
rs55726557	0.82[AMR][1000 genomes]
rs55752034	0.85[AMR][1000 genomes]
rs55832916	0.84[AMR][1000 genomes]
rs56007918	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs56296737	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs6945135	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs6964740	0.83[AMR][1000 genomes]
rs6967664	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs73033403	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs73033408	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73033412	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs73033414	0.85[AMR][1000 genomes]
rs73033417	0.84[AMR][1000 genomes]
rs73033432	0.89[AMR][1000 genomes]
rs73033457	0.87[AMR][1000 genomes]
rs73033460	0.84[AMR][1000 genomes]
rs73033466	1.00[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs73033479	0.89[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs73047393	0.81[AMR][1000 genomes]
rs73049305	0.84[AMR][1000 genomes]
rs73049327	0.82[AMR][1000 genomes]
rs73049331	0.84[AMR][1000 genomes]
rs73049362	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs73049380	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs73051415	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs73051444	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73051469	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs757788	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7804264	0.81[AMR][1000 genomes]
rs7811164	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1029250	chr7:2722737-2881021	Weak transcription Strong transcription Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
2	nsv538652	chr7:2722737-2881021	Strong transcription Flanking Active TSS Weak transcription Enhancers Genic enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
3	nsv1015700	chr7:2753965-2945848	Flanking Active TSS Strong transcription Active TSS Enhancers Genic enhancers Weak transcription Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
4	nsv1022612	chr7:2789555-3019200	Enhancers ZNF genes & repeats Genic enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
5	nsv1018162	chr7:2817460-2891181	Enhancers Flanking Active TSS Weak transcription Strong transcription Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	8 gene(s)	inside rSNPs	diseases
6	nsv538655	chr7:2817460-2891181	Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	8 gene(s)	inside rSNPs	diseases
7	nsv1019463	chr7:2848448-2881872	Enhancers Genic enhancers Weak transcription Transcr. at gene 5' and 3' Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
8	nsv887313	chr7:2875420-2927120	Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Enhancers Strong transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases
9	nsv887314	chr7:2875420-2944187	Active TSS Weak transcription Flanking Active TSS Enhancers Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:2851800-2882800	Weak transcription	Aorta	Aorta
2	chr7:2861000-2881800	Weak transcription	Colonic Mucosa	Colon
3	chr7:2861400-2882200	Weak transcription	Rectal Mucosa Donor 31	rectum
4	chr7:2861400-2883000	Weak transcription	Thymus	Thymus
5	chr7:2861800-2882400	Weak transcription	Rectal Mucosa Donor 29	rectum
6	chr7:2862200-2882600	Weak transcription	Placenta Amnion	Placenta Amnion
7	chr7:2862800-2882400	Weak transcription	A549	lung
8	chr7:2863800-2881600	Weak transcription	HMEC	breast
9	chr7:2864200-2881000	Weak transcription	Skeletal Muscle Female	skeletal muscle
10	chr7:2864200-2882800	Weak transcription	Esophagus	oesophagus
11	chr7:2864800-2881800	Weak transcription	Fetal Thymus	thymus
12	chr7:2865000-2882400	Weak transcription	Fetal Kidney	kidney
13	chr7:2865400-2879600	Weak transcription	Brain Cingulate Gyrus	brain
14	chr7:2865400-2882600	Weak transcription	HSMMtube	muscle
15	chr7:2865600-2880200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
16	chr7:2865600-2883000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
17	chr7:2870400-2881400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
18	chr7:2872400-2881200	Weak transcription	Pancreas	Pancrea
19	chr7:2872600-2882800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr7:2872800-2880200	Weak transcription	Fetal Intestine Large	intestine
21	chr7:2872800-2881000	Weak transcription	Pancreatic Islets	Pancreatic Islet
22	chr7:2872800-2882600	Weak transcription	Psoas Muscle	Psoas
23	chr7:2872800-2882800	Weak transcription	Liver	Liver
24	chr7:2874600-2881200	Weak transcription	Right Ventricle	heart
25	chr7:2874600-2882400	Genic enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
26	chr7:2874800-2882000	Weak transcription	NH-A	brain
27	chr7:2874800-2882800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
28	chr7:2875000-2880000	Weak transcription	H1 Cell Line	embryonic stem cell
29	chr7:2875000-2882800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
30	chr7:2875200-2881000	Weak transcription	Brain Anterior Caudate	brain
31	chr7:2875400-2879000	Weak transcription	Lung	lung
32	chr7:2875400-2880800	Weak transcription	Placenta	Placenta
33	chr7:2875400-2881200	Weak transcription	Fetal Brain Female	brain
34	chr7:2875400-2882000	Weak transcription	Gastric	stomach
35	chr7:2875600-2879600	Weak transcription	NHEK	skin
36	chr7:2875600-2881400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
37	chr7:2875800-2879000	Genic enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
38	chr7:2876000-2880400	Genic enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
39	chr7:2876000-2881800	Weak transcription	Muscle Satellite Cultured Cells	--
40	chr7:2876000-2882400	Weak transcription	HSMM	muscle
41	chr7:2876200-2881000	Weak transcription	Brain Germinal Matrix	brain
42	chr7:2876200-2882000	Weak transcription	Brain Hippocampus Middle	brain
43	chr7:2876200-2882000	Weak transcription	Ovary	ovary
44	chr7:2876200-2882800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
45	chr7:2876400-2881600	Weak transcription	Stomach Smooth Muscle	stomach
46	chr7:2876400-2881800	Enhancers	Primary B cells from peripheral blood	blood
47	chr7:2876600-2880000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
48	chr7:2876600-2881000	Genic enhancers	Primary hematopoietic stem cells short term culture	blood
49	chr7:2876800-2881200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
50	chr7:2876800-2882000	Weak transcription	H9 Cell Line	embryonic stem cell

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