Variant report

Variant	rs11097354
Chromosome Location	chr4:93934566-93934567
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 23 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs1039938	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1456359	0.92[CEU][hapmap]
rs17020132	0.85[EUR][1000 genomes]
rs17328778	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1840715	0.82[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs1840716	0.82[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs1912718	0.84[EUR][1000 genomes]
rs2870657	0.81[EUR][1000 genomes]
rs36053546	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6811974	0.86[EUR][1000 genomes]
rs6814422	0.83[EUR][1000 genomes]
rs7670430	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7672245	0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv916371	chr4:93673026-93994807	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv879611	chr4:93707288-93987251	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv879612	chr4:93761619-93969165	Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
4	nsv1014842	chr4:93790604-93957114	Enhancers Bivalent Enhancer Weak transcription ZNF genes & repeats Active TSS Strong transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
5	nsv997640	chr4:93790604-93982695	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
6	nsv1007177	chr4:93834536-94155349	Enhancers Weak transcription Genic enhancers Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
7	nsv537186	chr4:93834536-94155349	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
8	nsv879614	chr4:93869564-93989892	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases
9	nsv931937	chr4:93869856-94155348	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
10	nsv1011740	chr4:93904073-94073963	Weak transcription Flanking Active TSS Enhancers Active TSS Strong transcription ZNF genes & repeats Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11097354	UNC5C	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:93932800-93936200	Weak transcription	HUES6 Cell Line	embryonic stem cell
2	chr4:93932800-93936400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
3	chr4:93933000-93935400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
4	chr4:93933000-93935800	Weak transcription	HUES48 Cell Line	embryonic stem cell
5	chr4:93933000-93936200	Weak transcription	H1 Cell Line	embryonic stem cell
6	chr4:93933000-93936400	Weak transcription	HUES64 Cell Line	embryonic stem cell
7	chr4:93933000-93936600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
8	chr4:93933200-93937000	Weak transcription	iPS-20b Cell Line	embryonic stem cell

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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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