Variant report

Variant	rs3808143
Chromosome Location	chr7:126563643-126563644
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 51 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs1010517	0.84[CHB][hapmap]
rs10227752	0.84[CHB][hapmap]
rs10236120	0.84[CHB][hapmap]
rs10236204	0.84[CHB][hapmap]
rs10236227	0.84[CHB][hapmap]
rs10275501	0.84[CHB][hapmap]
rs10487463	0.84[CHB][hapmap]
rs11563513	0.84[CHB][hapmap]
rs11563801	0.84[CHB][hapmap]
rs12164089	0.84[CHB][hapmap]
rs12667764	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap]
rs12669064	0.84[CHB][hapmap];0.88[CHD][hapmap];0.96[GIH][hapmap];0.84[MEX][hapmap]
rs12669815	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];1.00[YRI][hapmap]
rs12671594	0.89[CEU][hapmap];0.94[CHB][hapmap];0.91[JPT][hapmap]
rs1361965	0.84[CHB][hapmap]
rs1361966	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1361968	0.84[CHB][hapmap]
rs1361976	0.83[CHB][hapmap]
rs1419438	0.84[CHB][hapmap]
rs1419449	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1419450	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap]
rs1419451	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1419467	0.84[EUR][1000 genomes]
rs1419468	0.84[CHB][hapmap]
rs1592372	0.88[CHB][hapmap]
rs16871742	0.89[CHB][hapmap]
rs17150358	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap]
rs17861383	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap]
rs17862250	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap]
rs17863175	0.83[CHB][hapmap];0.81[CHD][hapmap];0.91[JPT][hapmap];0.91[MEX][hapmap]
rs17866363	1.00[YRI][hapmap]
rs17867106	1.00[YRI][hapmap]
rs2106188	0.84[CHB][hapmap]
rs2188188	0.84[CHB][hapmap]
rs2237775	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2237776	0.84[CHB][hapmap]
rs3808133	1.00[CEU][hapmap]
rs3808136	0.84[CHB][hapmap]
rs3808144	0.83[AMR][1000 genomes]
rs3824009	1.00[ASW][hapmap]
rs4326328	0.84[CHB][hapmap]
rs4728057	0.84[CHB][hapmap]
rs929174	0.84[CHB][hapmap];0.81[CHD][hapmap];0.91[JPT][hapmap];0.91[MEX][hapmap]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv529300	chr7:125669493-126587858	Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
2	nsv1032938	chr7:126067684-126587859	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv539119	chr7:126067684-126587859	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	nsv608376	chr7:126457779-126571077	Enhancers Weak transcription ZNF genes & repeats Active TSS	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	esv2758132	chr7:126494789-126677843	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
6	esv2759562	chr7:126494789-126677843	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
7	nsv427805	chr7:126494789-126677843	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
8	nsv5940	chr7:126535731-126580660	Enhancers Weak transcription Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs3808143	KCP	cis	parietal	SCAN
rs3808143	LOC154872	cis	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
chromosomal regions: chr1:12345-34567

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