Variant report

Variant	rs2742110
Chromosome Location	chr12:10326509-10326510
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 19 )
Associated
traits (count: 8 )

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs11053653	0.81[ASN][1000 genomes]
rs2010655	0.95[JPT][hapmap]
rs2537777	0.96[MEX][hapmap]
rs2537778	0.91[MEX][hapmap]
rs2634159	0.94[ASN][1000 genomes]
rs2634162	1.00[CHB][hapmap];0.91[JPT][hapmap];0.97[ASN][1000 genomes]
rs2634164	0.84[AMR][1000 genomes]
rs2742107	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2742108	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2742112	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2742113	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap];0.97[TSI][hapmap];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2742114	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2742115	0.82[CHD][hapmap];0.91[JPT][hapmap];0.96[MEX][hapmap];0.84[TSI][hapmap];0.81[ASN][1000 genomes]
rs3741860	0.91[JPT][hapmap];0.92[MEX][hapmap];0.81[TSI][hapmap];0.81[ASN][1000 genomes]
rs6488265	0.87[MEX][hapmap]
rs7305138	0.80[MEX][hapmap]
rs7315498	0.92[MEX][hapmap]
rs9300224	0.90[JPT][hapmap]

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	nsv898757	chr12:10229281-10614641	Enhancers Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Strong transcription Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	48 gene(s)	inside rSNPs	diseases

mRNA abundance (count:8)

SNP	Gene	Cis/trans	Tissue	Source
rs2742110	CLEC2B	cis	cerebellum	SCAN
rs2742110	LOH12CR1	cis	parietal	SCAN
rs2742110	CD27	cis	parietal	SCAN
rs2742110	CRTC3	trans	cerebellum	SCAN
rs2742110	NANOGNB	cis	cerebellum	SCAN
rs2742110	GNB3	cis	parietal	SCAN
rs2742110	PTPN6	cis	cerebellum	SCAN
rs2742110	CDKN1B	cis	parietal	SCAN

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:10321800-10331200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
2	chr12:10322000-10327600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
3	chr12:10323000-10327200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr12:10323400-10327400	Weak transcription	HMEC	breast
5	chr12:10323400-10327400	Weak transcription	NHEK	skin
6	chr12:10325200-10327800	Weak transcription	Placenta	Placenta
7	chr12:10325200-10328400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
8	chr12:10325400-10326600	Enhancers	Hela-S3	cervix
9	chr12:10325400-10330600	Weak transcription	Primary monocytes fromperipheralblood	blood
10	chr12:10325400-10330600	Weak transcription	Monocytes-CD14+_RO01746	blood
11	chr12:10325400-10335000	Weak transcription	A549	lung
12	chr12:10325600-10327400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
13	chr12:10326200-10334800	Weak transcription	Primary neutrophils fromperipheralblood	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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