Variant report

Variant	rs7804719
Chromosome Location	chr7:122161958-122161959
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 35 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs1010496	0.95[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10239784	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10487229	0.95[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11760273	1.00[ASN][1000 genomes]
rs11760538	1.00[ASN][1000 genomes]
rs11760765	0.95[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11761460	1.00[ASN][1000 genomes]
rs11763626	1.00[YRI][hapmap];1.00[ASN][1000 genomes]
rs11764665	1.00[CHD][hapmap];0.90[GIH][hapmap];1.00[LWK][hapmap];0.97[MKK][hapmap];0.85[TSI][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs11765061	1.00[YRI][hapmap];1.00[ASN][1000 genomes]
rs11767048	0.86[CEU][hapmap]
rs11767257	0.95[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs11767400	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11768209	1.00[ASN][1000 genomes]
rs11769723	1.00[ASW][hapmap];0.87[CEU][hapmap];1.00[CHD][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.84[MKK][hapmap];0.83[TSI][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs11770993	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11771685	0.89[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs12154838	1.00[YRI][hapmap]
rs17381160	0.95[CEU][hapmap];1.00[YRI][hapmap]
rs17381305	0.95[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17381596	1.00[ASW][hapmap];0.95[CEU][hapmap];0.97[GIH][hapmap];0.82[MEX][hapmap];0.95[MKK][hapmap];0.97[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17381814	0.89[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17381835	0.89[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17465881	0.90[CEU][hapmap];1.00[YRI][hapmap]
rs17465937	0.95[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34393979	1.00[ASN][1000 genomes]
rs41281719	1.00[ASN][1000 genomes]
rs55833580	1.00[ASN][1000 genomes]
rs6466821	0.95[CEU][hapmap];1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6956211	1.00[YRI][hapmap]
rs7778395	1.00[YRI][hapmap];1.00[ASN][1000 genomes]
rs7779199	1.00[ASN][1000 genomes]
rs7790115	1.00[ASW][hapmap];0.87[CEU][hapmap];1.00[CHD][hapmap];0.91[LWK][hapmap];1.00[MEX][hapmap];0.83[TSI][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs995251	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

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	nsv1017029	chr7:121958574-122338623	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7804719	SLC13A1	cis	cerebellum	SCAN

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:122155800-122171000	Weak transcription	H9 Cell Line	embryonic stem cell
2	chr7:122157200-122162000	Enhancers	HUES48 Cell Line	embryonic stem cell
3	chr7:122157200-122162200	Enhancers	iPS-15b Cell Line	embryonic stem cell
4	chr7:122157400-122162200	Enhancers	iPS-20b Cell Line	embryonic stem cell
5	chr7:122157600-122162000	Enhancers	HUES6 Cell Line	embryonic stem cell
6	chr7:122157600-122162200	Enhancers	HUES64 Cell Line	embryonic stem cell
7	chr7:122160400-122170800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
8	chr7:122160800-122162400	Enhancers	ES-I3 Cell Line	embryonic stem cell

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