Variant report

Variant	rs7651550
Chromosome Location	chr3:144497412-144497413
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:143689984..143692553-chr3:144495205..144498104,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000181744	Chromatin interaction

Extended variants
information (count: 52 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs1512781	1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs16855936	0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs16855937	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs16855941	0.95[ASN][1000 genomes]
rs16855943	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs16855946	0.91[JPT][hapmap]
rs16855950	0.98[ASN][1000 genomes]
rs16855955	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs1916250	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1916251	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs2375565	1.00[CEU][hapmap]
rs56380437	0.98[ASN][1000 genomes]
rs56807652	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs59664363	0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs60322313	0.89[ASN][1000 genomes]
rs60535604	1.00[ASN][1000 genomes]
rs60705164	0.89[ASN][1000 genomes]
rs61400914	0.89[ASN][1000 genomes]
rs61429069	0.89[ASN][1000 genomes]
rs61465948	0.89[ASN][1000 genomes]
rs6440267	0.89[ASN][1000 genomes]
rs6771295	0.89[ASN][1000 genomes]
rs6782105	0.89[ASN][1000 genomes]
rs6790055	0.98[ASN][1000 genomes]
rs6790749	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6791002	0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6791012	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6793649	0.89[ASN][1000 genomes]
rs6803084	0.98[ASN][1000 genomes]
rs6803703	1.00[CEU][hapmap]
rs73008056	0.89[ASN][1000 genomes]
rs7340591	0.89[ASN][1000 genomes]
rs73873579	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7611272	1.00[CHB][hapmap];1.00[CHD][hapmap];0.94[GIH][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs7615860	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7630559	0.89[ASN][1000 genomes]
rs7635998	0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7636179	0.94[ASN][1000 genomes]
rs7636248	0.94[ASN][1000 genomes]
rs7639659	0.88[EUR][1000 genomes]
rs7641230	1.00[ASN][1000 genomes]
rs7641244	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7641516	1.00[ASN][1000 genomes]
rs7644542	0.90[JPT][hapmap]
rs7646035	0.89[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv591928	chr3:144050897-144822081	Enhancers Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	esv3357831	chr3:144433846-144790831	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	esv3405013	chr3:144433866-144790801	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	nsv829746	chr3:144451478-144618224	Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Weak transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	nsv829747	chr3:144463330-144654092	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
6	nsv999196	chr3:144487765-144529406	Enhancers Weak transcription Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
7	nsv536755	chr3:144487765-144529406	Enhancers Weak transcription Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs7651550	PCOLCE2	cis	cerebellum	SCAN
rs7651550	ZFYVE19	trans	cerebellum	SCAN

Chromatin state (count:0 , 50 per page) page:

No data

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