Variant report

Variant	rs7625210
Chromosome Location	chr3:161160475-161160476
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:10)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:10 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr3:161087867..161091778-chr3:161159434..161163634,9	MCF-7	breast:
2	chr3:161088423..161092396-chr3:161159740..161164169,5	MCF-7	breast:
3	chr3:161156686..161159483-chr3:161160092..161163012,3	MCF-7	breast:
4	chr3:161160203..161162184-chr3:161166453..161168231,2	MCF-7	breast:
5	chr3:161159586..161162271-chr3:161162430..161165084,3	MCF-7	breast:
6	chr3:161157860..161160581-chr3:161168208..161171597,3	MCF-7	breast:
7	chr3:161137315..161139728-chr3:161159914..161161772,2	MCF-7	breast:
8	chr3:161119895..161121991-chr3:161159318..161161280,2	MCF-7	breast:
9	chr3:161139196..161140956-chr3:161159538..161162067,2	MCF-7	breast:
10	chr3:161149348..161152131-chr3:161159932..161161916,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000196542	Chromatin interaction

Extended variants
information (count: 26 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs1117344	0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12632883	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12633334	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1450524	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap]
rs1450531	0.83[ASN][1000 genomes]
rs1450532	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1905533	0.92[CEU][hapmap];0.83[CHB][hapmap];0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs34436128	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4599324	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7627320	0.91[CHB][hapmap];0.82[ASN][1000 genomes]
rs7633191	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7651540	0.92[CEU][hapmap];0.83[CHB][hapmap];0.86[MEX][hapmap];0.93[TSI][hapmap];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9290084	0.83[ASN][1000 genomes]
rs971515	0.92[CEU][hapmap];0.83[CHB][hapmap];0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9816665	0.91[CHB][hapmap];0.89[CHD][hapmap];0.86[MEX][hapmap];0.83[TSI][hapmap];0.83[ASN][1000 genomes]
rs9835278	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9835582	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9836881	0.95[CHB][hapmap];0.83[ASN][1000 genomes]
rs9836887	0.91[CHB][hapmap];0.89[CHD][hapmap];0.86[MEX][hapmap];0.83[TSI][hapmap];0.84[ASN][1000 genomes]
rs9837148	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9854937	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9858921	0.92[CEU][hapmap];0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[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	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
rs7625210	B3GALNT1	cis	lymphoblastoid	seeQTL

Chromatin state (count:0 , 50 per page) page:

No data

Quick Search:

Input of quick search could be:

dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links