Variant report

Variant	rs9464166
Chromosome Location	chr6:54806625-54806626
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs16886169	0.90[YRI][hapmap];0.88[AFR][1000 genomes]
rs16886182	0.91[YRI][hapmap];0.88[AFR][1000 genomes]
rs16886273	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1948818	0.88[AFR][1000 genomes]
rs2143797	0.91[YRI][hapmap];0.88[AFR][1000 genomes]
rs57032855	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58327945	0.88[AFR][1000 genomes]
rs59549804	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7762739	0.89[ASW][hapmap];0.91[YRI][hapmap]
rs9464158	1.00[MEX][hapmap]
rs9464161	0.91[YRI][hapmap];0.88[AFR][1000 genomes]
rs9464162	0.91[YRI][hapmap];0.88[AFR][1000 genomes]
rs9475057	0.82[YRI][hapmap]
rs9475059	0.83[YRI][hapmap]
rs9475060	0.83[YRI][hapmap];0.88[AFR][1000 genomes]
rs9475061	0.90[YRI][hapmap];0.88[AFR][1000 genomes]
rs9475062	0.91[YRI][hapmap];0.88[AFR][1000 genomes]
rs9475064	0.91[YRI][hapmap];0.88[AFR][1000 genomes]
rs9475067	0.96[AFR][1000 genomes]
rs9475072	1.00[YRI][hapmap];0.96[AFR][1000 genomes]
rs9475073	1.00[YRI][hapmap];0.96[AFR][1000 genomes]
rs9475075	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9475079	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9475144	0.82[YRI][hapmap]

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:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:54789800-54810200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr6:54797000-54811800	Weak transcription	Esophagus	oesophagus
3	chr6:54798800-54815600	Weak transcription	Fetal Intestine Small	intestine
4	chr6:54800400-54807600	Weak transcription	Small Intestine	intestine
5	chr6:54802200-54809600	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
6	chr6:54802600-54810800	Weak transcription	Pancreas	Pancrea
7	chr6:54804200-54807800	Strong transcription	NHEK	skin
8	chr6:54804400-54807400	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
9	chr6:54804600-54806800	Strong transcription	HMEC	breast
10	chr6:54804600-54809200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
11	chr6:54805200-54808200	Weak transcription	Fetal Intestine Large	intestine
12	chr6:54805400-54811400	Weak transcription	Rectal Mucosa Donor 31	rectum
13	chr6:54805600-54807200	Weak transcription	Hela-S3	cervix
14	chr6:54805600-54807400	Weak transcription	Sigmoid Colon	Sigmoid Colon
15	chr6:54805600-54808000	Weak transcription	Duodenum Mucosa	Duodenum
16	chr6:54805600-54808400	Weak transcription	Rectal Mucosa Donor 29	rectum
17	chr6:54806600-54809400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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