Variant report

Variant	rs1601199
Chromosome Location	chr3:161183995-161183996
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	chr3:161182193..161184879-chr3:161185126..161188257,3	MCF-7	breast:

Extended variants
information (count: 38 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs10936229	0.80[CEU][hapmap]
rs12630808	1.00[ASW][hapmap];0.82[YRI][hapmap]
rs12632883	0.80[AMR][1000 genomes]
rs1450524	0.85[TSI][hapmap]
rs1450532	0.81[AMR][1000 genomes]
rs1506480	0.80[CEU][hapmap]
rs1506481	0.80[CEU][hapmap]
rs1597494	0.83[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1905532	0.83[CEU][hapmap]
rs1905533	0.84[JPT][hapmap];0.87[AMR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs41386047	0.80[CEU][hapmap]
rs6441379	0.80[CEU][hapmap]
rs6441380	0.80[CEU][hapmap]
rs6441381	0.80[CEU][hapmap]
rs6762110	1.00[CEU][hapmap];0.86[CHB][hapmap];0.84[JPT][hapmap];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6781716	0.85[EUR][1000 genomes]
rs6793693	0.85[EUR][1000 genomes]
rs7620901	0.86[EUR][1000 genomes]
rs7621711	0.85[EUR][1000 genomes]
rs7624657	0.80[CEU][hapmap]
rs7624747	0.82[CEU][hapmap]
rs7625210	0.85[TSI][hapmap]
rs7636548	0.80[CEU][hapmap]
rs7641444	0.87[EUR][1000 genomes]
rs7651540	0.81[CEU][hapmap];0.88[CHD][hapmap];0.84[JPT][hapmap];0.91[TSI][hapmap];0.87[AMR][1000 genomes];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs872677	0.80[CEU][hapmap]
rs937811	0.83[CEU][hapmap]
rs971515	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs977380	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9835582	0.81[AMR][1000 genomes]
rs9847876	0.80[CEU][hapmap]
rs9854937	0.81[AMR][1000 genomes]
rs9868834	0.85[EUR][1000 genomes]
rs9883089	0.89[EUR][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	nsv533237	chr3:161019834-161804660	Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Bivalent/Poised TSS Bivalent Enhancer Active TSS ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	91 gene(s)	inside rSNPs	diseases
2	nsv829772	chr3:161047817-161202554	Bivalent Enhancer Bivalent/Poised TSS Enhancers Flanking Active TSS Strong transcription Weak transcription Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	88 gene(s)	inside rSNPs	diseases
3	nsv877710	chr3:161087857-161245414	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	84 gene(s)	inside rSNPs	diseases
4	nsv829773	chr3:161150422-161315189	Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1601199	C3orf57	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:161182600-161185400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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