Variant report

Variant	rs11234465
Chromosome Location	chr11:85605334-85605335
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr11:85604065..85605691-chr11:85609121..85611212,2	MCF-7	breast:
2	chr11:85604859..85606765-chr11:85607081..85610015,2	K562	blood:
3	chr11:85592798..85595721-chr11:85602697..85605651,2	MCF-7	breast:

Extended variants
information (count: 67 )
Associated
traits (count: 5 )

rSNPs within LD-proxies of this variant (count:58)

rs_ID	r²[population]
rs10501599	0.82[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.92[MEX][hapmap];0.83[MKK][hapmap];1.00[TSI][hapmap];0.82[YRI][hapmap]
rs10501601	0.94[CEU][hapmap];1.00[CHB][hapmap];0.84[CHD][hapmap];0.81[GIH][hapmap];1.00[JPT][hapmap];0.82[TSI][hapmap]
rs10898422	1.00[CHD][hapmap];0.81[JPT][hapmap];0.82[ASN][1000 genomes]
rs11234437	1.00[JPT][hapmap]
rs11234450	1.00[CHD][hapmap];1.00[JPT][hapmap]
rs11234455	0.89[JPT][hapmap]
rs11234460	0.91[CHD][hapmap];0.90[JPT][hapmap]
rs11234461	0.91[CHD][hapmap];0.90[JPT][hapmap]
rs11234467	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs11821654	0.82[CHB][hapmap];0.82[ASN][1000 genomes]
rs12274739	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][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];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12274987	0.82[CHB][hapmap]
rs12283410	0.82[CHB][hapmap]
rs12286210	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12286312	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12360932	0.91[CHD][hapmap];0.90[JPT][hapmap]
rs12362209	1.00[CHD][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs12363602	0.89[JPT][hapmap]
rs12363624	0.91[CHD][hapmap];0.90[JPT][hapmap]
rs12787412	1.00[CHB][hapmap]
rs12790645	0.82[CHB][hapmap];0.81[CHD][hapmap]
rs12794211	1.00[CHB][hapmap]
rs12795381	1.00[CHB][hapmap]
rs12795833	1.00[CHB][hapmap]
rs12798229	0.82[ASN][1000 genomes]
rs12802064	0.82[ASN][1000 genomes]
rs12802399	1.00[CHB][hapmap]
rs12805520	0.82[CHB][hapmap];0.81[CHD][hapmap];0.82[ASN][1000 genomes]
rs1445508	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1445509	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17148564	1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs17148574	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs17148585	0.94[CEU][hapmap];1.00[CHB][hapmap];0.81[GIH][hapmap]
rs17148704	1.00[CHB][hapmap]
rs17209169	1.00[JPT][hapmap]
rs17744745	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17745024	1.00[CHB][hapmap]
rs17817402	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17817444	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs17817648	1.00[CHB][hapmap]
rs17817931	1.00[CHB][hapmap]
rs17817992	1.00[CHB][hapmap]
rs3213934	0.82[CHB][hapmap]
rs34609418	0.82[ASN][1000 genomes]
rs56996745	0.94[ASN][1000 genomes]
rs7106460	0.94[CEU][hapmap];0.90[YRI][hapmap];0.90[AFR][1000 genomes]
rs7106577	0.94[CEU][hapmap]
rs7107303	0.82[CHB][hapmap]
rs7107455	0.82[CHB][hapmap]
rs7108491	0.83[EUR][1000 genomes]
rs7118279	0.82[CHB][hapmap];0.82[ASN][1000 genomes]
rs7121906	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs725459	0.82[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.83[MKK][hapmap];1.00[TSI][hapmap];0.82[YRI][hapmap]
rs7926846	0.82[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.83[MKK][hapmap];0.86[YRI][hapmap]
rs7934759	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes]
rs7936092	0.90[JPT][hapmap]
rs7949837	0.83[EUR][1000 genomes]
rs895257	0.94[ASN][1000 genomes]

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	nsv1051155	chr11:85006564-85721261	Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	64 gene(s)	inside rSNPs	diseases
2	nsv541110	chr11:85006564-85721261	Enhancers Strong transcription Weak transcription Bivalent Enhancer ZNF genes & repeats Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	64 gene(s)	inside rSNPs	diseases
3	nsv1035489	chr11:85502953-85778229	ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
4	nsv1048818	chr11:85524635-85746473	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
5	nsv541116	chr11:85524635-85746473	Enhancers Weak transcription Strong transcription Genic enhancers Active TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
6	nsv898051	chr11:85554057-85620823	Enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region	7 gene(s)	inside rSNPs	diseases
7	nsv898052	chr11:85579304-85620823	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
8	nsv898053	chr11:85579304-85634425	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
9	nsv1053808	chr11:85588919-85757693	Strong transcription Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases

mRNA abundance (count:5)

SNP	Gene	Cis/trans	Tissue	Source
rs11234465	SYTL2	cis	lymphoblastoid	seeQTL
rs11234465	RAB30	cis	cerebellum	SCAN
rs11234465	FZD4	cis	cerebellum	SCAN
rs11234465	SYTL2	cis	cerebellum	SCAN
rs11234465	PICALM	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:85605000-85605800	Enhancers	A549	lung

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