Variant report

Variant	rs59824837
Chromosome Location	chr5:179207698-179207699
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr5:179206337..179209276-chr5:179211151..179214245,3	K562	blood:
2	chr5:179207473..179209466-chr5:179245089..179247994,2	MCF-7	breast:
3	chr5:179201375..179203959-chr5:179207512..179210271,2	MCF-7	breast:
4	chr5:179199669..179202266-chr5:179204889..179207881,3	K562	blood:
5	chr5:179207543..179209811-chr5:179227923..179230897,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000161011	Chromatin interaction
ENSG00000161013	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs55800082	0.88[AFR][1000 genomes]
rs55915939	0.96[AFR][1000 genomes]
rs55967209	0.96[AFR][1000 genomes]
rs56093222	0.96[AFR][1000 genomes]
rs56719864	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57463529	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58722253	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59108011	0.88[AFR][1000 genomes]
rs59566858	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59651103	1.00[AFR][1000 genomes]
rs59680418	1.00[AMR][1000 genomes]
rs59721505	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59745533	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60485189	0.96[AFR][1000 genomes]
rs60716268	0.96[AFR][1000 genomes]
rs60910702	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61682673	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs66685266	0.96[AFR][1000 genomes]
rs66686562	0.96[AFR][1000 genomes]
rs67211456	0.96[AFR][1000 genomes]
rs67637906	0.96[AFR][1000 genomes]
rs67832593	0.96[AFR][1000 genomes]
rs67952129	0.96[AFR][1000 genomes]
rs6887072	1.00[AMR][1000 genomes]
rs72807328	0.88[AFR][1000 genomes]
rs73338111	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73338115	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73342164	1.00[AMR][1000 genomes]
rs73342167	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73347986	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73349908	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73351608	0.81[AFR][1000 genomes]
rs73351620	0.88[AFR][1000 genomes]
rs73351626	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73351628	0.88[AFR][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	nsv949554	chr5:178832325-179309513	Transcr. at gene 5' and 3' Weak transcription Strong transcription Active TSS Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	312 gene(s)	inside rSNPs	diseases
2	nsv883270	chr5:178951106-179350387	Weak transcription Strong transcription Flanking Active TSS Enhancers Genic enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	312 gene(s)	inside rSNPs	diseases
3	nsv531997	chr5:179107599-179588082	Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Weak transcription Genic enhancers Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	339 gene(s)	inside rSNPs	diseases
4	nsv469579	chr5:179184831-179360191	Genic enhancers Active TSS Weak transcription Enhancers Flanking Active TSS Strong transcription Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	182 gene(s)	inside rSNPs	diseases
5	nsv883274	chr5:179186397-179310330	Strong transcription Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	178 gene(s)	inside rSNPs	diseases
6	nsv518964	chr5:179193598-179227286	Strong transcription Enhancers Active TSS Weak transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	151 gene(s)	inside rSNPs	diseases
7	nsv883275	chr5:179193598-179267783	Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Enhancers Active TSS Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	176 gene(s)	inside rSNPs	diseases
8	nsv883276	chr5:179193598-179310330	Flanking Active TSS Strong transcription Weak transcription ZNF genes & repeats Genic enhancers Enhancers Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	178 gene(s)	inside rSNPs	diseases
9	nsv883277	chr5:179193598-179350387	Genic enhancers Enhancers Weak transcription Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	182 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:123 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:179191200-179210400	Strong transcription	Thymus	Thymus
2	chr5:179192000-179207800	Strong transcription	Fetal Thymus	thymus
3	chr5:179192200-179207800	Strong transcription	Primary T helper cells fromperipheralblood	blood
4	chr5:179192200-179208000	Strong transcription	iPS-18 Cell Line	embryonic stem cell
5	chr5:179192200-179210400	Strong transcription	Brain Germinal Matrix	brain
6	chr5:179192600-179209800	Strong transcription	Primary T cells from cord blood	blood
7	chr5:179192800-179209800	Strong transcription	Fetal Brain Female	brain
8	chr5:179193000-179210400	Strong transcription	Fetal Stomach	stomach
9	chr5:179193400-179207800	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
10	chr5:179193400-179208000	Strong transcription	Lung	lung
11	chr5:179193600-179209600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
12	chr5:179193800-179207800	Strong transcription	iPS-20b Cell Line	embryonic stem cell
13	chr5:179193800-179207800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
14	chr5:179193800-179207800	Strong transcription	Rectal Mucosa Donor 29	rectum
15	chr5:179193800-179208400	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
16	chr5:179193800-179209400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
17	chr5:179193800-179209600	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
18	chr5:179194400-179207800	Strong transcription	Stomach Smooth Muscle	stomach
19	chr5:179194400-179208000	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
20	chr5:179194600-179207800	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
21	chr5:179194600-179210400	Strong transcription	Fetal Intestine Small	intestine
22	chr5:179194800-179207800	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
23	chr5:179195400-179207800	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
24	chr5:179195800-179208600	Strong transcription	Skeletal Muscle Male	skeletal muscle
25	chr5:179196000-179209800	Strong transcription	Cortex derived primary cultured neurospheres	brain
26	chr5:179196000-179210400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
27	chr5:179196200-179207800	Strong transcription	Liver	Liver
28	chr5:179196200-179207800	Strong transcription	Brain Angular Gyrus	brain
29	chr5:179196600-179208600	Weak transcription	Fetal Heart	heart
30	chr5:179199800-179214000	Weak transcription	Fetal Brain Male	brain
31	chr5:179200800-179208600	Weak transcription	Stomach Mucosa	stomach
32	chr5:179201400-179210400	Strong transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
33	chr5:179201600-179209200	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
34	chr5:179202000-179221800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
35	chr5:179202600-179209000	Enhancers	Primary monocytes fromperipheralblood	blood
36	chr5:179203400-179209200	Weak transcription	Hela-S3	cervix
37	chr5:179203400-179209400	Weak transcription	NHEK	skin
38	chr5:179203400-179211800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
39	chr5:179203400-179213400	Weak transcription	Psoas Muscle	Psoas
40	chr5:179203400-179218200	Weak transcription	Primary hematopoietic stem cells	blood
41	chr5:179203400-179221600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
42	chr5:179203600-179208800	Weak transcription	Colon Smooth Muscle	Colon
43	chr5:179203600-179209400	Weak transcription	K562	blood
44	chr5:179203600-179211600	Weak transcription	NHDF-Ad	bronchial
45	chr5:179203600-179219600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
46	chr5:179203600-179220400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
47	chr5:179203600-179222000	Weak transcription	H9 Cell Line	embryonic stem cell
48	chr5:179204000-179221200	Weak transcription	Small Intestine	intestine
49	chr5:179204600-179207800	Genic enhancers	Placenta	Placenta
50	chr5:179204600-179208000	Strong transcription	Brain Dorsolateral Prefrontal Cortex	brain

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