Variant report

Variant	rs9405280
Chromosome Location	chr6:5692527-5692528
allele	C/T
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:17)

rs_ID	r²[population]
rs11752777	0.81[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs13213128	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2005970	0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2326634	0.80[ASN][1000 genomes]
rs4959347	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4960125	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4960126	0.80[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs62408067	0.89[AMR][1000 genomes];0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7746913	0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs877010	0.89[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs9378980	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9392709	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9392710	0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9405278	0.81[EUR][1000 genomes]
rs9405281	0.82[ASN][1000 genomes]
rs9405861	0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9504488	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];0.83[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	nsv916361	chr6:5315853-5695486	Weak transcription Enhancers Active TSS Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv600887	chr6:5545046-5694713	ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:5672200-5705800	Weak transcription	Thymus	Thymus
2	chr6:5673800-5701200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
3	chr6:5673800-5709800	Weak transcription	Stomach Smooth Muscle	stomach
4	chr6:5678000-5709400	Weak transcription	Pancreas	Pancrea
5	chr6:5678200-5694000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr6:5678400-5693400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
7	chr6:5680600-5695400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
8	chr6:5680800-5695000	Weak transcription	Primary T cells fromperipheralblood	blood
9	chr6:5681800-5695000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
10	chr6:5682200-5693200	Weak transcription	Primary T cells from cord blood	blood
11	chr6:5682400-5695200	Weak transcription	Primary T helper cells PMA-I stimulated	--
12	chr6:5682400-5695400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
13	chr6:5684600-5695400	Weak transcription	Fetal Stomach	stomach
14	chr6:5684800-5696000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
15	chr6:5684800-5706000	Weak transcription	Ovary	ovary
16	chr6:5685000-5695400	Weak transcription	HSMMtube	muscle
17	chr6:5685000-5698600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
18	chr6:5691400-5698200	Weak transcription	Spleen	Spleen
19	chr6:5692000-5693200	ZNF genes & repeats	ES-UCSF4 Cell Line	embryonic stem cell
20	chr6:5692400-5693000	ZNF genes & repeats	HUES64 Cell Line	embryonic stem cell

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