Variant report

Variant	rs2576206
Chromosome Location	chr1:217071322-217071323
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 12 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs1030849	0.82[AMR][1000 genomes];0.80[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11117718	0.94[ASN][1000 genomes]
rs11117720	1.00[CHB][hapmap];0.81[CHD][hapmap];0.86[GIH][hapmap];0.90[JPT][hapmap];0.94[ASN][1000 genomes]
rs12563547	0.85[ASN][1000 genomes]
rs1436880	1.00[CHB][hapmap];0.89[JPT][hapmap];0.93[ASN][1000 genomes]
rs1898312	0.87[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2576203	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];0.91[JPT][hapmap];1.00[MEX][hapmap];0.94[TSI][hapmap];0.83[YRI][hapmap];0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2576205	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs3795704	1.00[CHB][hapmap];0.81[CHD][hapmap];0.86[GIH][hapmap];0.81[JPT][hapmap];0.87[ASN][1000 genomes]
rs61325680	0.85[ASN][1000 genomes]
rs956977	0.87[CEU][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	nsv873179	chr1:217056893-217112871	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs2576206	SLC30A1	cis	parietal	SCAN
rs2576206	ATF3	cis	cerebellum	SCAN

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:217062600-217078000	Weak transcription	Pancreas	Pancrea
2	chr1:217062800-217076000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr1:217062800-217076200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
4	chr1:217062800-217087800	Weak transcription	Fetal Muscle Leg	muscle
5	chr1:217066200-217072200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
6	chr1:217067400-217075800	Weak transcription	Fetal Intestine Large	intestine
7	chr1:217067600-217072200	Weak transcription	Fetal Intestine Small	intestine
8	chr1:217067800-217076000	Weak transcription	Skeletal Muscle Female	skeletal muscle
9	chr1:217068200-217076000	Weak transcription	Left Ventricle	heart
10	chr1:217070400-217072000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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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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