Variant report

Variant	rs4628820
Chromosome Location	chr13:89578104-89578105
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

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

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs1001151	0.81[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1159222	0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12854250	0.95[CHB][hapmap];0.87[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.87[TSI][hapmap];0.86[ASN][1000 genomes]
rs12873569	0.98[EUR][1000 genomes]
rs1411561	0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1819591	0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1970270	0.87[ASN][1000 genomes]
rs2050585	0.81[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2150169	0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2347984	0.99[EUR][1000 genomes]
rs2348216	0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2785839	0.91[ASN][1000 genomes]
rs2807213	0.87[ASN][1000 genomes]
rs2807221	0.85[ASN][1000 genomes]
rs3864987	0.86[ASN][1000 genomes]
rs3864989	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3930555	0.81[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4771774	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4773422	0.85[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs4773423	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4773424	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.90[TSI][hapmap];0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs56026472	0.84[ASN][1000 genomes]
rs7323385	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7338742	0.85[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9515492	0.81[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9515499	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9515519	0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9522385	0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9522396	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9555838	0.86[ASN][1000 genomes]
rs9560189	0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9560199	0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:18 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv900820	chr13:89302824-89686507	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	nsv900821	chr13:89302824-89941209	Active TSS Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
3	nsv915862	chr13:89408920-90118030	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
4	esv2758339	chr13:89411081-89875974	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	esv2759957	chr13:89411081-89875974	ZNF genes & repeats Enhancers Flanking Active TSS Active TSS Weak transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
6	nsv900826	chr13:89466123-89686507	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Active TSS	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
7	nsv900828	chr13:89474702-89642526	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
8	nsv915623	chr13:89476229-89668705	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
9	nsv900831	chr13:89477369-89610815	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
10	nsv826739	chr13:89477707-89830601	Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
11	nsv900835	chr13:89502819-89610815	Enhancers Flanking Active TSS ZNF genes & repeats Weak transcription Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
12	nsv900839	chr13:89510330-89637081	Enhancers ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
13	esv34578	chr13:89515664-89822799	Enhancers ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
14	nsv900840	chr13:89516104-89686507	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
15	nsv900841	chr13:89523570-89622192	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
16	nsv1043687	chr13:89523570-89673179	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
17	nsv900842	chr13:89529847-89622192	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
18	esv2757546	chr13:89539415-89864593	Flanking Active TSS Enhancers Weak transcription Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:89577400-89578200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr13:89577600-89578200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
3	chr13:89577600-89578600	Enhancers	Breast Myoepithelial Primary Cells	Breast

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