Variant report

Variant	rs28656041
Chromosome Location	chr6:36789203-36789204
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:36789119..36791202-chr6:36794316..36796954,2	MCF-7	breast:
2	chr6:36185667..36187544-chr6:36788292..36790992,2	K562	blood:

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs1007956	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11751844	0.83[ASN][1000 genomes]
rs11758807	0.96[ASN][1000 genomes]
rs2007290	0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs236381	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs28673271	0.98[ASN][1000 genomes]
rs4711470	0.98[ASN][1000 genomes]
rs60097056	0.95[ASN][1000 genomes]
rs62406628	0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs62406629	0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs72856461	0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7745099	0.80[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs9368961	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9368963	0.95[ASN][1000 genomes]
rs9368964	0.88[ASN][1000 genomes]
rs9380603	0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9380605	0.84[ASN][1000 genomes]
rs9380607	0.96[ASN][1000 genomes]
rs9394387	0.95[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	nsv1023171	chr6:36686935-36880899	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
2	nsv538202	chr6:36686935-36880899	Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
3	nsv1033261	chr6:36687424-36837315	Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Enhancers Strong transcription Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
4	nsv5261	chr6:36754545-36798824	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Genic enhancers Active TSS	Chromatin interactive region	6 gene(s)	inside rSNPs	diseases
5	esv3396486	chr6:36788274-36793172	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Strong transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:58 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:36762600-36789600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
2	chr6:36777000-36797800	Weak transcription	Pancreas	Pancrea
3	chr6:36779000-36789400	Weak transcription	Fetal Stomach	stomach
4	chr6:36779000-36794000	Weak transcription	Brain Germinal Matrix	brain
5	chr6:36779200-36789400	Weak transcription	Right Ventricle	heart
6	chr6:36779400-36797600	Weak transcription	Fetal Brain Female	brain
7	chr6:36781600-36794200	Weak transcription	Brain Cingulate Gyrus	brain
8	chr6:36786000-36789400	Weak transcription	H9 Cell Line	embryonic stem cell
9	chr6:36786000-36790800	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
10	chr6:36787000-36791200	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
11	chr6:36787400-36796400	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
12	chr6:36787600-36789400	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
13	chr6:36787600-36790600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr6:36787800-36790600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
15	chr6:36788000-36789600	Weak transcription	Brain Anterior Caudate	brain
16	chr6:36788000-36791000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
17	chr6:36788200-36789600	Genic enhancers	HUVEC	blood vessel
18	chr6:36788400-36789400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
19	chr6:36788400-36789400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
20	chr6:36788400-36789400	Flanking Active TSS	K562	blood
21	chr6:36788400-36789800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
22	chr6:36788400-36789800	Enhancers	NHEK	skin
23	chr6:36788400-36790000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
24	chr6:36788400-36790000	Enhancers	HMEC	breast
25	chr6:36788400-36802400	Weak transcription	Fetal Kidney	kidney
26	chr6:36788600-36789400	Enhancers	Fetal Intestine Small	intestine
27	chr6:36788600-36789600	Enhancers	Fetal Muscle Leg	muscle
28	chr6:36788600-36789800	Enhancers	Placenta	Placenta
29	chr6:36788600-36790000	Enhancers	Primary hematopoietic stem cells short term culture	blood
30	chr6:36788600-36790200	Enhancers	Fetal Heart	heart
31	chr6:36788600-36792800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
32	chr6:36788800-36789600	Enhancers	iPS-18 Cell Line	embryonic stem cell
33	chr6:36788800-36789800	Enhancers	HUES64 Cell Line	embryonic stem cell
34	chr6:36788800-36789800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
35	chr6:36788800-36790600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
36	chr6:36788800-36791000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
37	chr6:36788800-36792000	Enhancers	Skeletal Muscle Female	skeletal muscle
38	chr6:36788800-36793200	Enhancers	Adipose Nuclei	Adipose
39	chr6:36788800-36797200	Enhancers	Right Atrium	heart
40	chr6:36789000-36789800	Enhancers	HUES6 Cell Line	embryonic stem cell
41	chr6:36789000-36789800	Genic enhancers	Cortex derived primary cultured neurospheres	brain
42	chr6:36789000-36790000	Enhancers	Fetal Muscle Trunk	muscle
43	chr6:36789000-36790400	Weak transcription	NH-A	brain
44	chr6:36789000-36790600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
45	chr6:36789000-36790600	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
46	chr6:36789000-36791800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
47	chr6:36789200-36789400	Enhancers	Lung	lung
48	chr6:36789200-36789600	Enhancers	iPS-15b Cell Line	embryonic stem cell
49	chr6:36789200-36789600	Enhancers	Primary hematopoietic stem cells	blood
50	chr6:36789200-36789600	Bivalent Enhancer	HepG2	liver

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