Variant report

Variant	rs1222960
Chromosome Location	chr6:102167293-102167294
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs10485273	0.83[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs10872739	0.80[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs1222958	0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];0.84[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1337412	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1337415	0.80[EUR][1000 genomes]
rs1415489	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1832293	0.89[ASN][1000 genomes]
rs2225865	0.90[ASN][1000 genomes]
rs2518295	0.86[ASN][1000 genomes]
rs2518303	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9322602	0.86[ASN][1000 genomes]
rs9485530	0.86[ASN][1000 genomes]
rs9485532	0.80[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs9498663	0.80[ASN][1000 genomes]
rs9498664	0.85[ASN][1000 genomes]
rs9498667	0.81[AMR][1000 genomes];0.86[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3384771	chr6:101996253-102283808	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
2	nsv1032499	chr6:102069885-102720998	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv1016167	chr6:102152010-102198914	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:102155200-102170600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr6:102164800-102168000	Enhancers	iPS-18 Cell Line	embryonic stem cell
3	chr6:102165000-102167600	Enhancers	iPS-15b Cell Line	embryonic stem cell
4	chr6:102165400-102168600	Enhancers	HUES64 Cell Line	embryonic stem cell
5	chr6:102165600-102168000	Enhancers	HUES48 Cell Line	embryonic stem cell
6	chr6:102166200-102167800	Enhancers	iPS-20b Cell Line	embryonic stem cell
7	chr6:102166400-102167400	Enhancers	ES-I3 Cell Line	embryonic stem cell
8	chr6:102166400-102167600	Enhancers	H1 Cell Line	embryonic stem cell
9	chr6:102166400-102167800	Enhancers	HUES6 Cell Line	embryonic stem cell
10	chr6:102167200-102168400	Weak transcription	H9 Cell Line	embryonic stem cell

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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

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