Variant report

Variant	rs2109858
Chromosome Location	chr7:117869529-117869530
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr7:117822582..117824978-chr7:117867664..117869545,2	MCF-7	breast:
2	chr7:117823258..117824835-chr7:117869393..117871803,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000128534	Chromatin interaction

Extended variants
information (count: 70 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:66)

rs_ID	r²[population]
rs10229271	0.91[EUR][1000 genomes]
rs10487389	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10487391	1.00[CEU][hapmap]
rs10487393	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10487394	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10487395	1.00[ASN][1000 genomes]
rs1468283	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1468284	0.89[AMR][1000 genomes]
rs16870200	0.85[ASN][1000 genomes]
rs16873472	0.94[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs17140792	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs17140797	0.91[EUR][1000 genomes]
rs17140886	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs17140956	0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs17140962	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs17140972	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17141043	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17141056	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs17141102	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17141104	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17141125	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17141126	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17141127	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17141146	0.89[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs17141150	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17141165	1.00[ASN][1000 genomes]
rs17141173	1.00[ASN][1000 genomes]
rs17141175	0.81[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs17141184	0.81[AFR][1000 genomes];0.89[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs17141188	0.81[AFR][1000 genomes];0.89[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs17141201	0.90[ASN][1000 genomes]
rs17141207	0.81[AFR][1000 genomes];0.89[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs17141223	0.85[ASN][1000 genomes]
rs17141225	0.81[AFR][1000 genomes];0.89[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs17141228	0.85[ASN][1000 genomes]
rs17141230	0.85[ASN][1000 genomes]
rs17141232	0.81[AFR][1000 genomes];0.89[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs17141240	0.81[AFR][1000 genomes];0.89[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs17141242	0.85[ASN][1000 genomes]
rs17141249	0.82[ASN][1000 genomes]
rs2041529	0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2041530	0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2057684	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2057685	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2058419	1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2402299	0.91[EUR][1000 genomes]
rs34551547	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3757797	1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3757798	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3944132	0.90[ASN][1000 genomes]
rs4526305	0.90[ASN][1000 genomes]
rs4727860	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4727863	0.81[AFR][1000 genomes];0.89[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs4727864	0.85[ASN][1000 genomes]
rs4730841	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4730842	0.81[AFR][1000 genomes];0.89[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs4730843	0.81[AFR][1000 genomes];0.89[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs4730844	0.90[ASN][1000 genomes]
rs4730845	0.89[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs4730846	0.90[ASN][1000 genomes]
rs4730847	0.85[ASN][1000 genomes]
rs55759859	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6961495	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6972068	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6978482	1.00[EUR][1000 genomes]
rs7786481	0.82[EUR][1000 genomes];1.00[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	nsv869971	chr7:117420583-118274149	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	40 gene(s)	inside rSNPs	diseases
2	nsv889088	chr7:117744660-117913648	Weak transcription Active TSS Strong transcription Flanking Active TSS Enhancers Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
3	nsv889089	chr7:117865940-117921267	Weak transcription Flanking Active TSS Enhancers Active TSS ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
4	nsv889090	chr7:117865940-118067460	Flanking Active TSS Enhancers Weak transcription Bivalent Enhancer Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

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

No data

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

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