Variant report

Variant	rs6886778
Chromosome Location	chr5:90194841-90194842
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:90194213..90195845-chr5:90213067..90215905,2	MCF-7	breast:

Extended variants
information (count: 35 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs10942615	0.87[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs10942616	0.84[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs10942617	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11948100	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11956677	0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12658466	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs16869291	0.81[EUR][1000 genomes]
rs1818350	0.89[EUR][1000 genomes]
rs1828175	0.83[EUR][1000 genomes]
rs36088173	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4362971	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4382198	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4916692	0.84[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs4916824	0.85[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs4916825	0.80[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4916830	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs56851353	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs58258039	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59665236	0.81[EUR][1000 genomes]
rs61006221	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs61130831	0.81[EUR][1000 genomes]
rs6863794	0.81[EUR][1000 genomes]
rs6889598	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6893164	0.82[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs73771110	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73771113	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs73771115	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs73771117	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs73771118	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs73771119	0.82[AMR][1000 genomes];0.96[EUR][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	nsv529544	chr5:89523963-90412409	Weak transcription Enhancers Active TSS Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	58 gene(s)	inside rSNPs	diseases
2	nsv882367	chr5:89956991-90209824	Enhancers Strong transcription Weak transcription Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases
3	nsv1015449	chr5:89968626-90219398	Weak transcription Strong transcription Enhancers ZNF genes & repeats Genic enhancers Active TSS Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases
4	nsv517049	chr5:90003131-90262475	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	9 gene(s)	inside rSNPs	diseases
5	esv2754394	chr5:90181320-90225796	Active TSS Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Strong transcription Bivalent Enhancer	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:90185000-90226600	Weak transcription	K562	blood
2	chr5:90186400-90218000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
3	chr5:90191800-90195000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
4	chr5:90192800-90204400	Weak transcription	HUES64 Cell Line	embryonic stem cell
5	chr5:90192800-90204800	Weak transcription	H1 Cell Line	embryonic stem cell
6	chr5:90193400-90195200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
7	chr5:90193800-90195200	Weak transcription	Esophagus	oesophagus
8	chr5:90193800-90195600	Weak transcription	Gastric	stomach
9	chr5:90193800-90195800	Enhancers	Rectal Mucosa Donor 31	rectum
10	chr5:90194000-90195800	Enhancers	Duodenum Mucosa	Duodenum
11	chr5:90194200-90198400	Enhancers	Fetal Intestine Small	intestine
12	chr5:90194400-90195800	Enhancers	Pancreas	Pancrea
13	chr5:90194400-90195800	Enhancers	Stomach Mucosa	stomach
14	chr5:90194400-90198400	Enhancers	Fetal Intestine Large	intestine
15	chr5:90194600-90195000	Enhancers	A549	lung
16	chr5:90194600-90195400	Enhancers	Sigmoid Colon	Sigmoid Colon
17	chr5:90194600-90195800	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
18	chr5:90194800-90195000	Enhancers	Liver	Liver
19	chr5:90194800-90195000	Enhancers	HepG2	liver

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