Variant report

Variant	rs677465
Chromosome Location	chr10:44732917-44732918
allele	C/T
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:13)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:13 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr10:44729477..44732943-chr10:44804375..44806757,3	MCF-7	breast:
2	chr10:44668402..44669705-chr10:44731998..44733019,55	MCF-7	breast:
3	chr10:44731064..44733763-chr10:44747711..44749635,2	MCF-7	breast:
4	chr10:44732015..44732924-chr10:44846342..44846893,2	MCF-7	breast:
5	chr10:44730852..44733719-chr10:44748011..44750876,2	MCF-7	breast:
6	chr10:44732320..44732983-chr10:44740173..44741126,4	MCF-7	breast:
7	chr10:44731978..44732983-chr10:44740097..44741426,10	MCF-7	breast:
8	chr10:44732066..44733012-chr10:44754258..44755175,3	MCF-7	breast:
9	chr10:44668379..44669722-chr10:44731795..44732960,38	MCF-7	breast:
10	chr10:44732461..44733006-chr10:44880111..44880630,2	MCF-7	breast:
11	chr10:44668076..44670399-chr10:44731878..44734290,2	MCF-7	breast:
12	chr10:44732015..44732924-chr10:44846266..44846893,3	MCF-7	breast:
13	chr10:44668402..44669721-chr10:44731902..44733039,109	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000107562	Chromatin interaction

Extended variants
information (count: 95 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:93)

rs_ID	r²[population]
rs10900000	0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10900001	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10900002	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10900003	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11238889	1.00[CEU][hapmap];0.85[CHB][hapmap];0.91[EUR][1000 genomes]
rs11238890	1.00[CEU][hapmap];0.82[CHB][hapmap];0.91[EUR][1000 genomes]
rs11238891	0.91[EUR][1000 genomes]
rs11238892	0.91[EUR][1000 genomes]
rs11238894	0.91[EUR][1000 genomes]
rs11238898	0.92[EUR][1000 genomes]
rs11238901	0.92[EUR][1000 genomes]
rs11238902	0.92[EUR][1000 genomes]
rs11238911	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11238912	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11238915	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11238916	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11238923	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11238925	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11238927	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11238929	0.87[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11238943	0.89[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11238944	0.89[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11238946	0.90[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11238947	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11492882	0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11511571	0.91[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11511599	0.85[AFR][1000 genomes];0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11517223	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11517251	0.89[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11591406	0.92[EUR][1000 genomes]
rs11592445	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11594667	0.92[EUR][1000 genomes]
rs11595159	0.92[EUR][1000 genomes]
rs11595946	0.92[EUR][1000 genomes]
rs12355852	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1615053	0.92[EUR][1000 genomes]
rs1619661	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1657346	0.86[EUR][1000 genomes]
rs1657349	0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1680636	0.92[EUR][1000 genomes]
rs1680639	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1704217	0.95[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1704218	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1704221	0.87[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1704222	0.87[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1704223	0.92[EUR][1000 genomes]
rs1704226	0.92[EUR][1000 genomes]
rs1704228	0.92[EUR][1000 genomes]
rs1704231	0.83[ASN][1000 genomes]
rs1746042	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1746044	0.94[AFR][1000 genomes];0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2664856	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2760670	0.82[EUR][1000 genomes]
rs2781545	0.82[AFR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2804031	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs471451	0.81[EUR][1000 genomes]
rs479596	1.00[CHB][hapmap]
rs494207	0.82[EUR][1000 genomes]
rs523297	0.91[EUR][1000 genomes]
rs545025	0.97[EUR][1000 genomes]
rs546659	0.82[EUR][1000 genomes]
rs556434	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58129751	0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs583489	0.83[EUR][1000 genomes]
rs58540467	0.85[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs589655	0.95[EUR][1000 genomes]
rs596152	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs605414	0.82[EUR][1000 genomes]
rs606314	0.95[EUR][1000 genomes]
rs617019	0.97[EUR][1000 genomes]
rs617542	0.82[EUR][1000 genomes]
rs61855739	0.92[EUR][1000 genomes]
rs61855740	0.92[EUR][1000 genomes]
rs61855743	0.92[EUR][1000 genomes]
rs61857460	0.92[EUR][1000 genomes]
rs622725	0.86[EUR][1000 genomes]
rs629213	0.97[EUR][1000 genomes]
rs646890	0.82[EUR][1000 genomes]
rs649192	0.82[EUR][1000 genomes]
rs661697	0.97[EUR][1000 genomes]
rs673354	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs673778	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs674746	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs676966	0.92[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs680091	0.89[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7079375	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7082177	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7086639	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7097076	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7100370	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7900072	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7902040	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs906944	0.85[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[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	nsv1038511	chr10:44596885-44870030	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
2	nsv508579	chr10:44709770-44799256	Weak transcription Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Flanking Active TSS Active TSS Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:44728000-44734200	Enhancers	Placenta	Placenta
2	chr10:44728400-44734800	Enhancers	HepG2	liver
3	chr10:44729600-44737800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr10:44730200-44733800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr10:44730200-44741200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
6	chr10:44731400-44734200	Enhancers	K562	blood
7	chr10:44731800-44734000	Enhancers	Pancreas	Pancrea
8	chr10:44732000-44733000	Enhancers	Liver	Liver

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