Variant report

Variant	rs12335647
Chromosome Location	chr9:84725096-84725097
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	chr9:84717220..84719786-chr9:84723914..84726394,2	MCF-7	breast:

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs10118455	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.96[MKK][hapmap];1.00[TSI][hapmap];0.92[YRI][hapmap]
rs10217389	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap]
rs11139464	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs11139465	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12001732	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12336197	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12337550	0.82[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs12338553	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12339026	1.00[CEU][hapmap];1.00[JPT][hapmap];0.80[YRI][hapmap]
rs12340419	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap]
rs12341327	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12341627	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12342604	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs12344716	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs12345231	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.88[TSI][hapmap];0.85[YRI][hapmap]
rs1334759	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.81[EUR][1000 genomes]
rs1334760	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1334761	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1413797	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap]
rs1413798	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1855607	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap]
rs56306550	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs57223205	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57921200	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs6559647	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6559649	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7023372	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs73463500	0.83[ASN][1000 genomes]
rs7865884	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9886839	0.88[EUR][1000 genomes]
rs9886873	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1049305	chr9:84667596-84918690	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv831640	chr9:84695958-84880535	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:84722400-84727200	Weak transcription	Cortex derived primary cultured neurospheres	brain
2	chr9:84722400-84731400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
3	chr9:84723600-84725400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
4	chr9:84724600-84725200	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
5	chr9:84724800-84731800	Weak transcription	Pancreas	Pancrea

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links