Variant report

Variant	rs1948779
Chromosome Location	chr6:55219889-55219890
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 31 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs1032772	0.85[JPT][hapmap]
rs10948902	1.00[CHB][hapmap];0.86[CHD][hapmap]
rs12193282	1.00[CHB][hapmap]
rs12209649	0.85[ASN][1000 genomes]
rs12662782	0.85[JPT][hapmap]
rs12663965	0.85[JPT][hapmap]
rs16886642	0.85[JPT][hapmap]
rs16886667	0.82[JPT][hapmap]
rs16886670	0.82[JPT][hapmap]
rs16886684	0.85[JPT][hapmap]
rs16886688	0.82[JPT][hapmap]
rs17830060	0.85[JPT][hapmap]
rs1948781	0.93[ASW][hapmap];0.87[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.83[GIH][hapmap];1.00[JPT][hapmap];0.92[LWK][hapmap];0.89[MEX][hapmap];0.94[MKK][hapmap];0.88[TSI][hapmap];1.00[YRI][hapmap]
rs3843527	0.82[JPT][hapmap]
rs3846915	0.82[JPT][hapmap]
rs3846916	0.82[JPT][hapmap]
rs3846917	0.85[JPT][hapmap]
rs6900253	0.85[JPT][hapmap]
rs6938678	0.82[JPT][hapmap]
rs6938704	0.85[JPT][hapmap]
rs873867	0.82[CHD][hapmap];0.85[JPT][hapmap]
rs9464228	1.00[CHB][hapmap];0.86[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv885903	chr6:55142337-55344782	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	nsv1015161	chr6:55149388-55225072	Active TSS Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats	TF binding region CpG island	1 gene(s)	inside rSNPs	diseases
3	nsv1029279	chr6:55152655-55222696	ZNF genes & repeats Weak transcription Active TSS Enhancers Flanking Active TSS	TF binding region CpG island	1 gene(s)	inside rSNPs	diseases
4	nsv1034005	chr6:55152655-55225072	Enhancers Active TSS ZNF genes & repeats Weak transcription Flanking Active TSS	TF binding region CpG island	1 gene(s)	inside rSNPs	diseases
5	nsv1034960	chr6:55152655-55243149	Active TSS Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS	TF binding region CpG island	1 gene(s)	inside rSNPs	diseases
6	nsv462947	chr6:55156812-55226013	Enhancers Active TSS ZNF genes & repeats Weak transcription Flanking Active TSS	TF binding region CpG island	1 gene(s)	inside rSNPs	diseases
7	nsv603162	chr6:55156812-55226013	Weak transcription Active TSS ZNF genes & repeats Enhancers Flanking Active TSS	TF binding region CpG island	1 gene(s)	inside rSNPs	diseases
8	nsv885904	chr6:55156812-55344782	Enhancers Active TSS ZNF genes & repeats Weak transcription Strong transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
9	esv3347672	chr6:55205042-55224529	ZNF genes & repeats Enhancers	n/a	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1948779	RAB23	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
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