Variant report

Variant	rs58632404
Chromosome Location	chr6:1866399-1866400
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:1860563..1862869-chr6:1864416..1866746,2	K562	blood:
2	chr6:1858177..1860635-chr6:1865077..1867804,2	MCF-7	breast:

Extended variants
information (count: 44 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs56088586	1.00[AMR][1000 genomes]
rs56284044	1.00[AMR][1000 genomes]
rs56347469	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56403345	1.00[AMR][1000 genomes]
rs56808713	1.00[AMR][1000 genomes]
rs56955166	1.00[AMR][1000 genomes]
rs57499788	1.00[AMR][1000 genomes]
rs57708249	1.00[AMR][1000 genomes]
rs59618379	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60523161	1.00[AMR][1000 genomes]
rs61355927	1.00[AMR][1000 genomes]
rs61635847	1.00[AMR][1000 genomes]
rs73410433	1.00[AMR][1000 genomes]
rs73412537	1.00[AMR][1000 genomes]
rs73417921	1.00[AMR][1000 genomes]
rs73417934	0.88[AFR][1000 genomes]
rs73417937	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73417944	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73425506	1.00[AMR][1000 genomes]
rs73425523	1.00[AMR][1000 genomes]
rs73425536	1.00[AMR][1000 genomes]
rs73425551	1.00[AMR][1000 genomes]
rs73425558	1.00[AMR][1000 genomes]
rs73425566	1.00[AMR][1000 genomes]
rs73425572	1.00[AMR][1000 genomes]
rs73425577	1.00[AMR][1000 genomes]
rs73425600	1.00[AMR][1000 genomes]
rs73427359	1.00[AMR][1000 genomes]
rs73427404	1.00[AMR][1000 genomes]
rs73718508	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7774602	1.00[AMR][1000 genomes]
rs7774932	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:12 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv530548	chr6:1441421-2351608	Weak transcription Enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	76 gene(s)	inside rSNPs	diseases
2	nsv491607	chr6:1580681-1951526	Strong transcription Weak transcription Enhancers Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
3	nsv1020603	chr6:1697548-1921374	Weak transcription Strong transcription Active TSS Enhancers Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
4	nsv538093	chr6:1697548-1921374	Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	nsv869043	chr6:1744238-2006788	Enhancers Weak transcription ZNF genes & repeats Strong transcription Active TSS Genic enhancers Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
6	nsv538094	chr6:1757776-1907505	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
7	nsv931941	chr6:1768439-2246781	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
8	nsv531295	chr6:1773436-2724986	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	71 gene(s)	inside rSNPs	diseases
9	nsv883383	chr6:1775436-1918572	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Genic enhancers Bivalent/Poised TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
10	nsv883384	chr6:1787862-1942538	Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Genic enhancers Active TSS Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
11	nsv1019895	chr6:1832936-1882435	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Strong transcription Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
12	nsv1032149	chr6:1848148-2006021	Enhancers Active TSS Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:44 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:1842800-1872400	Weak transcription	Gastric	stomach
2	chr6:1851200-1895600	Weak transcription	Rectal Mucosa Donor 29	rectum
3	chr6:1851400-1872200	Weak transcription	Pancreas	Pancrea
4	chr6:1851400-1909600	Weak transcription	Rectal Mucosa Donor 31	rectum
5	chr6:1856800-1869600	Weak transcription	Sigmoid Colon	Sigmoid Colon
6	chr6:1857600-1877200	Weak transcription	Primary T cells from cord blood	blood
7	chr6:1861400-1870400	Weak transcription	Colonic Mucosa	Colon
8	chr6:1861600-1870000	Weak transcription	Aorta	Aorta
9	chr6:1862800-1868000	Weak transcription	GM12878-XiMat	blood
10	chr6:1864400-1866600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr6:1864600-1866400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
12	chr6:1864600-1866800	Enhancers	iPS-18 Cell Line	embryonic stem cell
13	chr6:1864600-1867000	Enhancers	HUES64 Cell Line	embryonic stem cell
14	chr6:1864600-1867200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
15	chr6:1864800-1866800	Enhancers	ES-I3 Cell Line	embryonic stem cell
16	chr6:1864800-1866800	Enhancers	Fetal Kidney	kidney
17	chr6:1864800-1867200	Enhancers	HUES48 Cell Line	embryonic stem cell
18	chr6:1864800-1867400	Enhancers	HepG2	liver
19	chr6:1865000-1866800	Enhancers	Cortex derived primary cultured neurospheres	brain
20	chr6:1865200-1869600	Weak transcription	H9 Cell Line	embryonic stem cell
21	chr6:1865200-1884600	Weak transcription	Small Intestine	intestine
22	chr6:1865400-1866600	Weak transcription	HUES6 Cell Line	embryonic stem cell
23	chr6:1865400-1869400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
24	chr6:1865400-1869600	Weak transcription	Ovary	ovary
25	chr6:1865400-1870600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
26	chr6:1865400-1871000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
27	chr6:1865600-1867200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
28	chr6:1865600-1869200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
29	chr6:1865800-1866400	Enhancers	Breast Myoepithelial Primary Cells	Breast
30	chr6:1865800-1866400	Enhancers	Brain Hippocampus Middle	brain
31	chr6:1865800-1867000	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
32	chr6:1865800-1870200	Weak transcription	Brain Anterior Caudate	brain
33	chr6:1865800-1872200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
34	chr6:1866000-1866400	Enhancers	Brain Angular Gyrus	brain
35	chr6:1866000-1867200	Enhancers	H1 Cell Line	embryonic stem cell
36	chr6:1866000-1867200	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
37	chr6:1866000-1868000	Enhancers	Stomach Mucosa	stomach
38	chr6:1866000-1869600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
39	chr6:1866200-1866400	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
40	chr6:1866200-1866400	Enhancers	Brain Cingulate Gyrus	brain
41	chr6:1866200-1866400	Flanking Active TSS	Brain Substantia Nigra	brain
42	chr6:1866200-1866600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
43	chr6:1866200-1867000	Enhancers	iPS-15b Cell Line	embryonic stem cell
44	chr6:1866200-1867000	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin

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