Variant report

Variant	rs11020277
Chromosome Location	chr11:93082717-93082718
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 18 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs11020265	0.82[CHB][hapmap];1.00[JPT][hapmap]
rs11020268	1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes]
rs11020292	1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs11020293	1.00[ASW][hapmap];1.00[CEU][hapmap];0.86[CHB][hapmap];0.86[CHD][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[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs11020294	1.00[CEU][hapmap];0.86[CHB][hapmap];0.85[CHD][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs11020295	1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs11020299	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes]
rs11020302	1.00[AMR][1000 genomes]
rs11020310	1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap]
rs11020401	1.00[MEX][hapmap]
rs16918854	1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs16918858	1.00[AMR][1000 genomes]
rs16918865	1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes]
rs4132360	0.86[CHB][hapmap];1.00[JPT][hapmap]
rs7949194	0.86[CHB][hapmap];1.00[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1039134	chr11:92790000-93219942	Strong transcription Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
2	nsv468793	chr11:93068163-93129893	Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv898181	chr11:93072843-93662459	Flanking Active TSS Weak transcription Enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	119 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs11020277	CCDC67	cis	lymphoblastoid	seeQTL
rs11020277	CCDC67	cis	multi-tissue	Pritchard

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:93081200-93083400	Enhancers	iPS-18 Cell Line	embryonic stem cell
2	chr11:93081600-93083400	Enhancers	ES-I3 Cell Line	embryonic stem cell
3	chr11:93081600-93083800	Enhancers	iPS-15b Cell Line	embryonic stem cell
4	chr11:93081800-93083400	Enhancers	H9 Cell Line	embryonic stem cell
5	chr11:93082000-93082800	Flanking Active TSS	iPS-20b Cell Line	embryonic stem cell
6	chr11:93082000-93083400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
7	chr11:93082400-93083200	Enhancers	HUES6 Cell Line	embryonic stem cell
8	chr11:93082400-93089000	Weak transcription	Pancreatic Islets	Pancreatic Islet
9	chr11:93082600-93083200	Weak transcription	H1 Cell Line	embryonic stem cell
10	chr11:93082600-93083400	Enhancers	HUES48 Cell Line	embryonic stem cell
11	chr11:93082600-93083400	Enhancers	HUES64 Cell Line	embryonic stem cell

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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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