Variant report

Variant	rs17580122
Chromosome Location	chr1:226778586-226778587
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 14 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs12029429	1.00[CEU][hapmap]
rs17520589	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs17520819	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17579954	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs17580764	1.00[CEU][hapmap];1.00[YRI][hapmap];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs55767921	0.83[AFR][1000 genomes];0.85[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs56290706	0.92[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs58677448	0.83[AFR][1000 genomes];0.85[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs603609	1.00[CHB][hapmap]
rs60520072	1.00[AMR][1000 genomes]
rs60706522	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs708755	0.93[EUR][1000 genomes]
rs73098838	0.93[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	nsv470779	chr1:226778432-226833304	Strong transcription Enhancers Genic enhancers Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:226765000-226790000	Weak transcription	Right Atrium	heart
2	chr1:226774800-226790200	Weak transcription	Fetal Intestine Small	intestine
3	chr1:226776800-226783600	Weak transcription	Stomach Smooth Muscle	stomach
4	chr1:226777000-226778600	Enhancers	HUES6 Cell Line	embryonic stem cell
5	chr1:226777200-226778600	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
6	chr1:226777400-226778600	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
7	chr1:226777400-226783200	Weak transcription	Brain Anterior Caudate	brain
8	chr1:226777600-226779000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
9	chr1:226778000-226778600	Enhancers	ES-I3 Cell Line	embryonic stem cell
10	chr1:226778000-226778600	Enhancers	H1 Cell Line	embryonic stem cell
11	chr1:226778000-226778600	Enhancers	Fetal Muscle Trunk	muscle
12	chr1:226778000-226778600	Enhancers	Fetal Muscle Leg	muscle
13	chr1:226778000-226778600	Enhancers	Fetal Stomach	stomach
14	chr1:226778200-226779400	Enhancers	Fetal Brain Male	brain
15	chr1:226778400-226778600	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
16	chr1:226778400-226778600	Bivalent Enhancer	Foreskin Fibroblast Primary Cells skin01	Skin
17	chr1:226778400-226778600	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
18	chr1:226778400-226778800	Enhancers	Pancreas	Pancrea

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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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