Variant report

Variant	rs10904169
Chromosome Location	chr10:4061039-4061040
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:17)

rs_ID	r²[population]
rs10751953	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10795121	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs11252259	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11252271	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11252279	0.86[CHB][hapmap];0.85[CHD][hapmap];0.86[GIH][hapmap]
rs12241918	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2031576	0.80[MEX][hapmap]
rs2031577	0.86[MEX][hapmap]
rs4242769	0.86[CHB][hapmap];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4880656	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4880657	0.83[EUR][1000 genomes]
rs4881271	0.86[MEX][hapmap]
rs7073584	0.86[MEX][hapmap]
rs7077002	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7917771	0.80[MEX][hapmap]
rs7919822	1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.92[TSI][hapmap];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs8181410	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1051297	chr10:3908706-4277678	Enhancers Active TSS Weak transcription Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	13 gene(s)	inside rSNPs	diseases
2	nsv831772	chr10:4039292-4212218	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv1046213	chr10:4059937-4144692	Weak transcription Flanking Active TSS Enhancers Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	nsv540460	chr10:4059937-4144692	Enhancers Flanking Active TSS ZNF genes & repeats Weak transcription Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10904169	RBM17	cis	parietal	SCAN

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:4056200-4066800	Weak transcription	Adipose Nuclei	Adipose
2	chr10:4056600-4068800	Weak transcription	NHDF-Ad	bronchial
3	chr10:4057200-4063800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr10:4058000-4062200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
5	chr10:4060000-4061400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
6	chr10:4060200-4061200	Enhancers	Primary T helper 17 cells PMA-I stimulated	--

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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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