Variant report

Variant	rs11004050
Chromosome Location	chr10:55843228-55843229
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 21 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs10825228	1.00[ASW][hapmap];0.92[CEU][hapmap];0.94[CHB][hapmap];0.92[CHD][hapmap];0.88[GIH][hapmap];0.89[LWK][hapmap];0.95[MEX][hapmap];0.94[MKK][hapmap];0.98[TSI][hapmap];0.94[YRI][hapmap]
rs11004048	0.82[EUR][1000 genomes]
rs11004049	1.00[CEU][hapmap];0.94[CHB][hapmap];0.90[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11004051	0.96[CEU][hapmap];0.94[CHB][hapmap];0.90[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11004062	0.96[CEU][hapmap];1.00[CHB][hapmap];0.94[YRI][hapmap];0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs16937881	0.90[JPT][hapmap]
rs17644458	0.84[CEU][hapmap];0.88[CHB][hapmap];0.81[JPT][hapmap]
rs1911415	0.94[CHB][hapmap];0.89[CHD][hapmap];0.90[JPT][hapmap];0.90[MEX][hapmap];0.84[MKK][hapmap];0.94[YRI][hapmap]
rs1911424	1.00[ASW][hapmap];0.92[CEU][hapmap];0.88[CHB][hapmap];0.85[CHD][hapmap];0.88[GIH][hapmap];0.88[LWK][hapmap];0.95[MEX][hapmap];0.97[MKK][hapmap];0.96[TSI][hapmap];0.94[YRI][hapmap]
rs1911425	0.91[ASW][hapmap];1.00[CEU][hapmap];0.88[CHB][hapmap];0.92[CHD][hapmap];0.84[GIH][hapmap];0.94[LWK][hapmap];0.97[MKK][hapmap];0.98[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs35384087	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs35647814	0.81[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4266979	0.83[CEU][hapmap];0.93[CHB][hapmap];0.90[JPT][hapmap];0.87[YRI][hapmap]
rs4282900	0.94[CHB][hapmap];0.94[YRI][hapmap]
rs7079133	0.93[CHB][hapmap];0.81[JPT][hapmap];0.84[ASN][1000 genomes]
rs7893675	0.94[CHB][hapmap];0.94[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv949692	chr10:55502542-55893206	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv869303	chr10:55714219-55857931	ZNF genes & repeats Enhancers Weak transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
3	nsv8667	chr10:55803106-56022647	Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
4	nsv428557	chr10:55815334-55988225	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
5	nsv870252	chr10:55823123-56029435	Enhancers ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11004050	MSMB	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:55841400-55847600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

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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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