Variant report

Variant	rs3927419
Chromosome Location	chr6:132533363-132533364
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	6:132269655-132282174..6:132532463-132533382	Hela-S3	cervix:
2	chr6:132270948..132272941-chr6:132533172..132535902,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000227220	Chromatin interaction
ENSG00000118523	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs1321261	1.00[CEU][hapmap];0.89[CHB][hapmap];0.84[JPT][hapmap];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1321279	0.84[CEU][hapmap];0.90[JPT][hapmap]
rs1321280	1.00[CEU][hapmap];0.94[CHB][hapmap];0.89[JPT][hapmap];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1406932	0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1406935	1.00[CEU][hapmap];0.89[CHB][hapmap];0.84[JPT][hapmap];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1406939	0.84[CEU][hapmap]
rs1406940	0.89[JPT][hapmap]
rs1535196	0.83[CEU][hapmap];0.94[JPT][hapmap]
rs1535197	1.00[CEU][hapmap];0.94[CHB][hapmap];0.89[JPT][hapmap];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1535198	0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4142807	0.83[CEU][hapmap];0.89[JPT][hapmap]
rs4142808	0.82[CEU][hapmap];0.89[JPT][hapmap]
rs6569777	0.83[CEU][hapmap];0.89[JPT][hapmap]
rs6569779	0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6933036	0.80[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6935755	1.00[CEU][hapmap];0.88[CHB][hapmap];0.84[JPT][hapmap];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7739344	1.00[CEU][hapmap];0.89[CHB][hapmap];0.84[JPT][hapmap];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7739499	1.00[CEU][hapmap];0.88[CHB][hapmap];0.84[JPT][hapmap];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7742430	0.84[CEU][hapmap];0.90[JPT][hapmap]
rs7760956	0.90[JPT][hapmap]
rs7761388	0.81[JPT][hapmap]
rs9375866	1.00[CEU][hapmap];0.88[CHB][hapmap];0.84[JPT][hapmap];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9385597	1.00[CEU][hapmap];0.88[CHB][hapmap];0.84[JPT][hapmap];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9388967	1.00[CEU][hapmap];0.83[CHB][hapmap];0.84[JPT][hapmap];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9402390	0.83[CEU][hapmap];0.89[JPT][hapmap]
rs9402391	1.00[CEU][hapmap];0.89[CHB][hapmap];0.84[JPT][hapmap];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9402392	0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9483414	0.84[CEU][hapmap];0.84[JPT][hapmap]
rs9493239	0.84[CEU][hapmap];0.90[JPT][hapmap]

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	esv2762616	chr6:132404708-132584324	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	22 gene(s)	inside rSNPs	diseases
2	nsv1024527	chr6:132532941-132571889	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:132532000-132535800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr6:132532200-132537200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
3	chr6:132532400-132536000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
4	chr6:132532600-132537200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links