Variant report

Variant	rs176107
Chromosome Location	chr5:89392662-89392663
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	chr5:89387870..89390195-chr5:89390248..89392767,2	MCF-7	breast:

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs10942581	0.85[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs11949266	0.85[AFR][1000 genomes];0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11958908	0.85[AFR][1000 genomes];0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11958926	0.85[AFR][1000 genomes];0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12517492	0.82[CHB][hapmap];0.82[JPT][hapmap]
rs150133	0.84[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs154193	0.85[ASN][1000 genomes]
rs157305	0.87[AFR][1000 genomes];0.80[AMR][1000 genomes];0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs157307	0.86[AFR][1000 genomes];0.80[AMR][1000 genomes];0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs157308	0.87[AFR][1000 genomes];0.80[AMR][1000 genomes];0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs157558	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs157559	0.85[ASN][1000 genomes]
rs157560	0.85[ASN][1000 genomes]
rs157564	0.87[AFR][1000 genomes];0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1596431	0.91[AFR][1000 genomes];0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1645412	0.90[AFR][1000 genomes];0.80[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1698137	0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1698138	0.91[AFR][1000 genomes];0.81[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1698139	0.95[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs175965	0.82[CHB][hapmap];0.85[JPT][hapmap]
rs2652732	0.87[ASN][1000 genomes]
rs280671	0.82[CHB][hapmap]
rs30713	0.80[AMR][1000 genomes];0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs662339	0.82[CHB][hapmap];0.85[JPT][hapmap]
rs690558	0.82[CHB][hapmap];0.82[JPT][hapmap]
rs702845	0.82[CHB][hapmap];0.85[JPT][hapmap]
rs818944	0.82[ASW][hapmap];0.82[CHB][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.91[LWK][hapmap];0.82[MKK][hapmap];0.87[TSI][hapmap];0.88[YRI][hapmap];0.87[AFR][1000 genomes];0.80[AMR][1000 genomes];0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs818946	0.82[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.86[AFR][1000 genomes];0.80[AMR][1000 genomes];0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs818947	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs818948	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs889293	0.82[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.81[AFR][1000 genomes];0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs924627	0.91[AFR][1000 genomes];0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs924628	0.88[AFR][1000 genomes];0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1021142	chr5:89102893-89897826	Active TSS Weak transcription Enhancers Bivalent Enhancer Strong transcription Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
2	nsv537804	chr5:89102893-89897826	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
3	nsv917025	chr5:89208994-89855436	Enhancers Active TSS Strong transcription Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
4	esv1803563	chr5:89385773-89395840	Enhancers Weak transcription Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	n/a

No data

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:89388800-89393200	Enhancers	NHEK	skin
2	chr5:89389400-89392800	Enhancers	Placenta Amnion	Placenta Amnion
3	chr5:89389400-89392800	Enhancers	HMEC	breast
4	chr5:89390600-89394600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
5	chr5:89391200-89393400	Enhancers	NH-A	brain
6	chr5:89391600-89393000	Enhancers	Hela-S3	cervix
7	chr5:89392000-89392800	Enhancers	HUES6 Cell Line	embryonic stem cell
8	chr5:89392200-89392800	Enhancers	Muscle Satellite Cultured Cells	--
9	chr5:89392200-89392800	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
10	chr5:89392200-89393000	Enhancers	ES-I3 Cell Line	embryonic stem cell
11	chr5:89392200-89393000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
12	chr5:89392200-89393000	Enhancers	Fetal Heart	heart
13	chr5:89392200-89393000	Enhancers	Stomach Mucosa	stomach
14	chr5:89392200-89393000	Enhancers	A549	lung
15	chr5:89392200-89393000	Enhancers	Osteobl	bone
16	chr5:89392200-89393200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
17	chr5:89392400-89392800	Enhancers	HSMM	muscle
18	chr5:89392400-89393000	Enhancers	HUES64 Cell Line	embryonic stem cell
19	chr5:89392400-89393000	Enhancers	iPS-15b Cell Line	embryonic stem cell
20	chr5:89392400-89393600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
21	chr5:89392600-89393200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
22	chr5:89392600-89393200	Enhancers	NHLF	lung

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links