Variant report

Variant	rs16852464
Chromosome Location	chr3:142344984-142344985
allele	A/G
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:12)

rs_ID	r²[population]
rs11707731	1.00[CEU][hapmap];0.83[EUR][1000 genomes]
rs11709900	0.87[EUR][1000 genomes]
rs11716882	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs13075800	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13086677	1.00[ASW][hapmap];1.00[CEU][hapmap];0.84[GIH][hapmap];1.00[MEX][hapmap];0.82[MKK][hapmap];0.92[TSI][hapmap]
rs13091637	0.82[EUR][1000 genomes]
rs16852543	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.84[GIH][hapmap];0.92[JPT][hapmap];0.90[MEX][hapmap];0.88[MKK][hapmap];0.96[TSI][hapmap];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2354859	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs35238606	0.81[EUR][1000 genomes]
rs4627	1.00[ASW][hapmap];1.00[CEU][hapmap];0.84[GIH][hapmap];0.90[MEX][hapmap];0.92[TSI][hapmap]
rs67594010	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs68065420	0.83[EUR][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	nsv877560	chr3:142132749-142362179	Strong transcription ZNF genes & repeats Weak transcription Active TSS Enhancers Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
2	nsv932989	chr3:142204208-142423305	Weak transcription Strong transcription Active TSS Flanking Active TSS Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	33 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:142334000-142357200	Weak transcription	Pancreas	Pancrea
2	chr3:142337800-142348400	Weak transcription	Gastric	stomach
3	chr3:142340200-142345600	Weak transcription	A549	lung
4	chr3:142341400-142346200	Enhancers	Pancreatic Islets	Pancreatic Islet
5	chr3:142342400-142345200	Active TSS	Rectal Mucosa Donor 29	rectum
6	chr3:142342600-142345000	Active TSS	Rectal Mucosa Donor 31	rectum
7	chr3:142342800-142345800	Active TSS	Duodenum Mucosa	Duodenum
8	chr3:142343400-142348600	Weak transcription	Sigmoid Colon	Sigmoid Colon
9	chr3:142343400-142366400	Weak transcription	Fetal Intestine Small	intestine
10	chr3:142343600-142345000	Weak transcription	Stomach Mucosa	stomach
11	chr3:142344200-142345200	Active TSS	Colonic Mucosa	Colon
12	chr3:142344800-142346600	Enhancers	K562	blood

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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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