Variant report

Variant	rs17161647
Chromosome Location	chr7:98879213-98879214
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 18 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs10228787	1.00[CEU][hapmap];0.88[YRI][hapmap];0.86[AMR][1000 genomes]
rs10237212	0.80[YRI][hapmap]
rs10240258	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11505837	0.86[AMR][1000 genomes]
rs11505838	0.86[AMR][1000 genomes]
rs11769124	0.86[AMR][1000 genomes]
rs11769461	0.94[MKK][hapmap];0.88[YRI][hapmap]
rs17161650	1.00[CEU][hapmap];1.00[TSI][hapmap];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs55790900	0.98[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58728048	0.86[AMR][1000 genomes]
rs61673162	0.86[AMR][1000 genomes]
rs61747205	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs755145	1.00[CEU][hapmap];1.00[TSI][hapmap];0.88[YRI][hapmap];0.86[AMR][1000 genomes]
rs886619	0.92[YRI][hapmap];0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9656059	0.86[AMR][1000 genomes]
rs9969388	0.84[YRI][hapmap]

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	esv3433144	chr7:98777878-99060209	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	62 gene(s)	inside rSNPs	diseases
2	nsv831068	chr7:98819572-99006481	Weak transcription Active TSS Genic enhancers Enhancers Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	48 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs17161647	STAG3	cis	lymphoblastoid	seeQTL

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:98860600-98892800	Weak transcription	Right Atrium	heart
2	chr7:98865400-98899200	Weak transcription	Spleen	Spleen
3	chr7:98873200-98905800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr7:98874800-98906800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
5	chr7:98875200-98886800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
6	chr7:98878000-98885600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin

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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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