Variant report

Variant	rs2803178
Chromosome Location	chr6:80262148-80262149
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	chr6:80259226..80262353-chr6:80262430..80266718,3	K562	blood:

Variant related genes	Relation type
ENSG00000261970	Chromatin interaction

Extended variants
information (count: 42 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs11753205	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11756302	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11756486	0.88[EUR][1000 genomes]
rs1472729	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16890842	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16890846	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1857722	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2047897	0.85[EUR][1000 genomes]
rs2069304	0.85[EUR][1000 genomes]
rs2455943	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2455944	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2655665	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2655686	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2655689	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2803172	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2803176	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2803177	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2803179	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2803180	0.87[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs2812697	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2812699	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs34068461	0.84[EUR][1000 genomes]
rs55697211	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs55951062	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs56311322	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs72901812	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs72901839	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7743617	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7771276	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7774418	0.85[EUR][1000 genomes]
rs7775536	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9448738	0.85[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1028607	chr6:79853272-80767716	Enhancers Active TSS Genic enhancers Flanking Active TSS Strong transcription Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
2	nsv886301	chr6:80111104-80339088	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
3	nsv886302	chr6:80111104-80355973	Weak transcription Flanking Active TSS Active TSS Enhancers Strong transcription ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
4	nsv1027388	chr6:80113449-80355973	ZNF genes & repeats Active TSS Enhancers Weak transcription Flanking Active TSS Strong transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
5	nsv830707	chr6:80134625-80325171	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
6	nsv1029259	chr6:80142754-80340332	Active TSS Strong transcription Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
7	nsv463906	chr6:80240951-80313297	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
8	nsv604052	chr6:80240951-80313297	Active TSS Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
9	nsv1018318	chr6:80241029-80465282	Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Bivalent/Poised TSS Strong transcription Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
10	nsv969312	chr6:80260238-80263042	Weak transcription Strong transcription Enhancers Flanking Active TSS Genic enhancers	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:63 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:80247600-80267800	Weak transcription	Sigmoid Colon	Sigmoid Colon
2	chr6:80248600-80262800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
3	chr6:80248600-80262800	Weak transcription	Liver	Liver
4	chr6:80248800-80272000	Weak transcription	Ovary	ovary
5	chr6:80249400-80262200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
6	chr6:80254400-80262200	Weak transcription	Placenta	Placenta
7	chr6:80254400-80267800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
8	chr6:80254400-80271400	Weak transcription	H9 Cell Line	embryonic stem cell
9	chr6:80254400-80273000	Weak transcription	Left Ventricle	heart
10	chr6:80254600-80273800	Weak transcription	Stomach Mucosa	stomach
11	chr6:80255000-80280000	Weak transcription	Aorta	Aorta
12	chr6:80255200-80262600	Weak transcription	Fetal Brain Male	brain
13	chr6:80255200-80264800	Weak transcription	Fetal Heart	heart
14	chr6:80255200-80267800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
15	chr6:80255600-80262200	Weak transcription	Duodenum Mucosa	Duodenum
16	chr6:80255600-80264800	Weak transcription	Fetal Intestine Large	intestine
17	chr6:80255600-80279400	Weak transcription	HMEC	breast
18	chr6:80255600-80280000	Weak transcription	Skeletal Muscle Male	skeletal muscle
19	chr6:80255800-80275400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
20	chr6:80256000-80262400	Weak transcription	HSMMtube	muscle
21	chr6:80256000-80263400	Weak transcription	Skeletal Muscle Female	skeletal muscle
22	chr6:80256000-80263800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
23	chr6:80256000-80263800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
24	chr6:80256000-80280600	Weak transcription	Adipose Nuclei	Adipose
25	chr6:80256200-80264000	Weak transcription	HUES48 Cell Line	embryonic stem cell
26	chr6:80256200-80266600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
27	chr6:80256400-80262200	Weak transcription	H1 Cell Line	embryonic stem cell
28	chr6:80256400-80263800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
29	chr6:80256400-80263800	Weak transcription	Brain Angular Gyrus	brain
30	chr6:80256400-80264000	Weak transcription	Brain Substantia Nigra	brain
31	chr6:80256400-80264200	Weak transcription	Osteobl	bone
32	chr6:80256400-80267200	Weak transcription	Brain Cingulate Gyrus	brain
33	chr6:80256400-80267600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
34	chr6:80256600-80262200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
35	chr6:80257200-80268600	Weak transcription	Spleen	Spleen
36	chr6:80257400-80262200	Weak transcription	Lung	lung
37	chr6:80257400-80263400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
38	chr6:80257400-80268000	Weak transcription	Fetal Stomach	stomach
39	chr6:80257400-80273200	Weak transcription	Pancreas	Pancrea
40	chr6:80257400-80278600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
41	chr6:80257400-80278600	Weak transcription	Fetal Kidney	kidney
42	chr6:80257600-80274200	Weak transcription	HUES64 Cell Line	embryonic stem cell
43	chr6:80257800-80277800	Weak transcription	Fetal Intestine Small	intestine
44	chr6:80258600-80279200	Weak transcription	Fetal Lung	lung
45	chr6:80260000-80263200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
46	chr6:80260600-80262400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
47	chr6:80260600-80262800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
48	chr6:80260600-80272800	Weak transcription	Primary hematopoietic stem cells	blood
49	chr6:80260600-80274400	Weak transcription	Fetal Brain Female	brain
50	chr6:80260600-80278600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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