Variant report

Variant	rs6908745
Chromosome Location	chr6:54717207-54717208
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 38 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs10807484	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10807485	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10948862	0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10948864	0.89[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12191299	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12191386	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12192659	0.83[AMR][1000 genomes]
rs12194667	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12195438	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12196314	0.86[ASN][1000 genomes]
rs12201892	0.85[ASN][1000 genomes]
rs12202062	0.85[ASN][1000 genomes]
rs12203709	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12205222	0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12205372	0.86[ASN][1000 genomes]
rs12207559	0.89[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12216039	0.89[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12216049	0.89[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1910357	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2270989	1.00[ASN][1000 genomes]
rs34713378	0.81[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs4712075	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62412605	0.86[ASN][1000 genomes]
rs72957572	0.86[ASN][1000 genomes]
rs7747352	0.89[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7760490	0.86[ASN][1000 genomes]
rs9296769	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9464148	0.86[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9464149	0.84[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9475029	0.81[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs9475038	0.86[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9475039	0.92[AFR][1000 genomes];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9475040	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9475041	0.85[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9475045	0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9475046	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.99[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	nsv885900	chr6:54517968-54852462	Active TSS Bivalent Enhancer Enhancers Weak transcription Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	esv2763553	chr6:54687979-54820487	Weak transcription Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:54712600-54725000	Weak transcription	H9 Cell Line	embryonic stem cell
2	chr6:54713200-54718200	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr6:54713200-54720800	Weak transcription	HUES48 Cell Line	embryonic stem cell
4	chr6:54713200-54721000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
5	chr6:54713200-54725600	Weak transcription	Gastric	stomach
6	chr6:54713400-54720800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
7	chr6:54713400-54720800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
8	chr6:54713400-54726400	Weak transcription	Rectal Mucosa Donor 29	rectum
9	chr6:54714800-54717400	Weak transcription	Duodenum Mucosa	Duodenum
10	chr6:54714800-54720400	Weak transcription	Rectal Mucosa Donor 31	rectum
11	chr6:54715000-54717400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
12	chr6:54715400-54719400	Weak transcription	HMEC	breast
13	chr6:54715400-54720800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
14	chr6:54715400-54731200	Weak transcription	Hela-S3	cervix
15	chr6:54715600-54717600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
16	chr6:54717000-54720000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
17	chr6:54717200-54717400	Enhancers	Stomach Mucosa	stomach
18	chr6:54717200-54718600	ZNF genes & repeats	Breast Myoepithelial Primary Cells	Breast
19	chr6:54717200-54719400	Strong transcription	NHEK	skin

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