Variant report

Variant	rs12340206
Chromosome Location	chr9:99826102-99826103
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 21 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs10119016	1.00[AMR][1000 genomes]
rs10123351	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10980403	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10980421	0.84[AFR][1000 genomes]
rs10980430	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10980433	0.84[AFR][1000 genomes]
rs10980435	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10980463	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10980464	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12338332	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12343472	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28484691	1.00[AMR][1000 genomes]
rs28513814	1.00[AMR][1000 genomes]
rs28528697	1.00[AMR][1000 genomes]
rs28803929	1.00[AMR][1000 genomes]
rs56190907	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73547546	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73547563	1.00[AMR][1000 genomes]
rs73654646	0.91[AFR][1000 genomes];1.00[AMR][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	nsv428540	chr9:99722815-99863455	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv831662	chr9:99752521-99939231	Bivalent Enhancer Strong transcription Active TSS Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:99816200-99834600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr9:99825200-99826400	Weak transcription	Stomach Mucosa	stomach
3	chr9:99825400-99826200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
4	chr9:99825400-99826400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
5	chr9:99825400-99826600	Weak transcription	Placenta Amnion	Placenta Amnion
6	chr9:99825600-99829800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chr9:99825800-99826600	Weak transcription	HMEC	breast
8	chr9:99826000-99827000	Enhancers	Fetal Intestine Large	intestine
9	chr9:99826000-99827000	Enhancers	Fetal Intestine Small	intestine

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Input of quick search could be:

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

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