Variant report

Variant	rs16826060
Chromosome Location	chr1:186855555-186855556
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 15 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs10798065	0.86[AMR][1000 genomes]
rs10911938	0.86[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs12042344	0.88[CEU][hapmap];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12720519	0.88[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs16826055	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1980444	0.90[JPT][hapmap]
rs2049963	0.90[JPT][hapmap]
rs2064115	0.84[CHB][hapmap];0.81[JPT][hapmap];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2223308	0.91[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs2223309	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs60328504	0.84[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7512281	0.86[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs7534926	0.86[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs7540602	1.00[CEU][hapmap];0.82[CHB][hapmap];0.95[JPT][hapmap];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv872590	chr1:186557453-187500338	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 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	chr1:186839200-186884800	Weak transcription	Duodenum Mucosa	Duodenum
2	chr1:186841800-186862400	Weak transcription	Hela-S3	cervix
3	chr1:186845200-186856800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr1:186848000-186856000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
5	chr1:186850600-186856400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
6	chr1:186850800-186862200	Weak transcription	Monocytes-CD14+_RO01746	blood
7	chr1:186850800-186863400	Weak transcription	Primary monocytes fromperipheralblood	blood
8	chr1:186850800-186865400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
9	chr1:186851200-186856000	Weak transcription	Rectal Smooth Muscle	rectum
10	chr1:186851600-186856000	Weak transcription	Colon Smooth Muscle	Colon
11	chr1:186852000-186857000	Weak transcription	Placenta Amnion	Placenta Amnion
12	chr1:186852800-186865600	Weak transcription	NHDF-Ad	bronchial
13	chr1:186853800-186856400	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
14	chr1:186854000-186869400	Weak transcription	Pancreas	Pancrea
15	chr1:186854000-186897200	Weak transcription	Lung	lung
16	chr1:186854400-186880000	Weak transcription	Fetal Intestine Small	intestine
17	chr1:186854600-186855800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
18	chr1:186854800-186868000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
19	chr1:186855400-186855600	ZNF genes & repeats	Primary hematopoietic stem cells	blood

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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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