Variant report

Variant	rs10490127
Chromosome Location	chr2:49110393-49110394
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:49108913..49110824-chr2:49114186..49115949,2	MCF-7	breast:

Extended variants
information (count: 50 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs10187109	0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10210521	0.82[ASN][1000 genomes]
rs10210646	0.81[ASN][1000 genomes]
rs10490126	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12469769	0.88[ASN][1000 genomes]
rs12477968	0.91[ASN][1000 genomes]
rs12478030	0.91[ASN][1000 genomes]
rs13418054	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17037685	0.87[ASN][1000 genomes]
rs17037688	0.87[ASN][1000 genomes]
rs17037700	0.87[ASN][1000 genomes]
rs17037744	0.86[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs34307840	0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs34682390	0.86[ASN][1000 genomes]
rs35457516	0.87[ASN][1000 genomes]
rs35486816	0.87[ASN][1000 genomes]
rs35629921	0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4254550	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4605416	0.86[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs55671322	0.82[ASN][1000 genomes]
rs56146087	1.00[ASN][1000 genomes]
rs62137442	0.86[ASN][1000 genomes]
rs62137443	0.85[ASN][1000 genomes]
rs6419618	0.83[EUR][1000 genomes]
rs66519107	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6708130	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6755046	0.87[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs68045719	0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs72811899	0.80[ASN][1000 genomes]
rs72813703	0.82[ASN][1000 genomes]
rs72813705	0.82[ASN][1000 genomes]
rs72813714	0.85[ASN][1000 genomes]
rs72823278	0.88[ASN][1000 genomes]
rs72823284	0.88[ASN][1000 genomes]
rs72823285	0.87[ASN][1000 genomes]
rs72823286	0.87[ASN][1000 genomes]
rs72825204	1.00[ASN][1000 genomes]
rs733726	0.88[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:12 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1002793	chr2:48771220-49466550	ZNF genes & repeats Enhancers Weak transcription Bivalent Enhancer Strong transcription Genic enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
2	nsv1004965	chr2:48796170-49443587	Bivalent Enhancer Enhancers Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
3	nsv535684	chr2:48796170-49443587	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
4	nsv498119	chr2:48808834-49422647	Weak transcription Enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
5	nsv998864	chr2:49015878-49230000	Enhancers Flanking Active TSS Strong transcription Weak transcription Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
6	nsv874005	chr2:49086399-49142199	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
7	nsv1013414	chr2:49090394-49191927	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
8	nsv1012090	chr2:49090394-49192704	ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
9	nsv874006	chr2:49092782-49141414	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
10	nsv1006364	chr2:49096139-49147372	Enhancers Weak transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
11	nsv874007	chr2:49102526-49321164	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA	3 gene(s)	inside rSNPs	diseases
12	nsv581789	chr2:49109306-49150192	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:49107200-49115400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell

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