Variant report

Variant	rs28574990
Chromosome Location	chr8:120241431-120241432
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	chr8:120219693..120225456-chr8:120227472..120242098,24	MCF-7	breast:

Variant related genes	Relation type
ENSG00000147676	Chromatin interaction

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs10088771	0.83[AFR][1000 genomes]
rs10094143	0.81[AFR][1000 genomes]
rs11989972	1.00[EUR][1000 genomes]
rs16891967	1.00[EUR][1000 genomes]
rs16891968	1.00[EUR][1000 genomes]
rs16892003	1.00[EUR][1000 genomes]
rs16892269	0.81[AFR][1000 genomes]
rs16892301	0.81[AFR][1000 genomes]
rs16892302	0.81[AFR][1000 genomes]
rs16892310	0.81[AFR][1000 genomes]
rs16893931	1.00[EUR][1000 genomes]
rs28373723	0.81[AFR][1000 genomes]
rs28374309	0.81[AFR][1000 genomes]
rs28753374	0.81[AFR][1000 genomes]
rs28816373	1.00[AFR][1000 genomes]
rs28830917	0.81[AFR][1000 genomes]
rs28845555	0.85[AFR][1000 genomes]
rs28858215	0.85[AFR][1000 genomes]
rs28875182	0.90[AFR][1000 genomes]
rs34834488	1.00[EUR][1000 genomes]
rs4286978	1.00[EUR][1000 genomes]
rs4571759	1.00[EUR][1000 genomes]
rs58144012	1.00[EUR][1000 genomes]
rs60049650	1.00[EUR][1000 genomes]
rs60594924	1.00[EUR][1000 genomes]
rs6995289	1.00[EUR][1000 genomes]
rs7000762	0.81[AFR][1000 genomes]
rs73712716	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv868916	chr8:119911943-120762250	Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Enhancers Genic enhancers Weak transcription ZNF genes & repeats 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	26 gene(s)	inside rSNPs	diseases
2	esv2758169	chr8:119943309-120275750	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription 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
3	esv2759639	chr8:119943309-120275750	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:41 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:120223800-120262400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr8:120225600-120252400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
3	chr8:120229800-120246200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
4	chr8:120230400-120244200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
5	chr8:120230600-120261400	Weak transcription	Colonic Mucosa	Colon
6	chr8:120231000-120252400	Weak transcription	Sigmoid Colon	Sigmoid Colon
7	chr8:120231800-120254400	Weak transcription	Brain Anterior Caudate	brain
8	chr8:120232000-120245200	Weak transcription	Fetal Kidney	kidney
9	chr8:120232400-120242200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
10	chr8:120233000-120252400	Weak transcription	Adipose Nuclei	Adipose
11	chr8:120235200-120242400	Weak transcription	Brain Angular Gyrus	brain
12	chr8:120237200-120242000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
13	chr8:120238600-120242600	Strong transcription	Hela-S3	cervix
14	chr8:120238800-120242400	Strong transcription	Esophagus	oesophagus
15	chr8:120238800-120243200	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
16	chr8:120238800-120244200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
17	chr8:120238800-120245000	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
18	chr8:120239000-120241600	Strong transcription	HUES48 Cell Line	embryonic stem cell
19	chr8:120239200-120241800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
20	chr8:120239400-120243000	Strong transcription	H1 Cell Line	embryonic stem cell
21	chr8:120239400-120261600	Weak transcription	Pancreatic Islets	Pancreatic Islet
22	chr8:120239600-120242000	Strong transcription	Rectal Mucosa Donor 31	rectum
23	chr8:120239600-120242200	Strong transcription	iPS-20b Cell Line	embryonic stem cell
24	chr8:120239600-120242600	Strong transcription	Fetal Intestine Large	intestine
25	chr8:120239600-120242800	Strong transcription	Duodenum Mucosa	Duodenum
26	chr8:120239800-120242400	Strong transcription	Rectal Mucosa Donor 29	rectum
27	chr8:120239800-120244000	Strong transcription	HUES64 Cell Line	embryonic stem cell
28	chr8:120240000-120242200	Weak transcription	Brain Cingulate Gyrus	brain
29	chr8:120240000-120242400	Strong transcription	HUES6 Cell Line	embryonic stem cell
30	chr8:120240000-120242400	Strong transcription	Pancreas	Pancrea
31	chr8:120240200-120242600	Strong transcription	Liver	Liver
32	chr8:120240600-120241600	Strong transcription	HepG2	liver
33	chr8:120240600-120266800	Weak transcription	Stomach Mucosa	stomach
34	chr8:120240800-120252400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
35	chr8:120240800-120260800	Weak transcription	Gastric	stomach
36	chr8:120241000-120242400	ZNF genes & repeats	Fetal Intestine Small	intestine
37	chr8:120241000-120262400	Weak transcription	Fetal Stomach	stomach
38	chr8:120241200-120242000	Weak transcription	NHEK	skin
39	chr8:120241200-120243800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
40	chr8:120241400-120241800	Weak transcription	H9 Cell Line	embryonic stem cell
41	chr8:120241400-120252400	Weak transcription	HMEC	breast

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