Variant report

Variant	rs1884255
Chromosome Location	chr6:120040428-120040429
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:119671503..119673094-chr6:120039219..120042156,2	K562	blood:

Extended variants
information (count: 59 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:53)

rs_ID	r²[population]
rs1040656	0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11153841	0.86[EUR][1000 genomes]
rs1159767	0.91[EUR][1000 genomes]
rs1160757	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1341496	0.88[EUR][1000 genomes]
rs1341500	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1341501	0.96[CEU][hapmap];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1341503	0.84[EUR][1000 genomes]
rs1884254	0.81[ASN][1000 genomes]
rs1884256	0.94[ASW][hapmap];0.88[CEU][hapmap];0.93[GIH][hapmap];0.91[LWK][hapmap];0.91[MEX][hapmap];0.88[MKK][hapmap];0.88[YRI][hapmap];0.89[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs2064568	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2064569	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2103845	0.85[CEU][hapmap]
rs2144360	0.86[EUR][1000 genomes]
rs34290353	0.80[EUR][1000 genomes]
rs6569084	0.92[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6569088	0.83[EUR][1000 genomes]
rs6913597	0.83[EUR][1000 genomes]
rs6916609	0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6922103	0.83[EUR][1000 genomes]
rs6930071	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6933847	0.83[EUR][1000 genomes]
rs6939299	0.90[EUR][1000 genomes]
rs706858	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7739068	0.83[EUR][1000 genomes]
rs7746982	0.81[AFR][1000 genomes];0.80[EUR][1000 genomes]
rs7747886	0.83[EUR][1000 genomes]
rs7757918	0.91[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs7758447	0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7771532	0.83[EUR][1000 genomes]
rs7772968	0.90[EUR][1000 genomes]
rs7776137	0.81[EUR][1000 genomes]
rs807310	0.90[EUR][1000 genomes]
rs807311	0.89[EUR][1000 genomes]
rs9320699	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9372545	0.86[EUR][1000 genomes]
rs9372546	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9372547	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9374816	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9374818	0.82[EUR][1000 genomes]
rs9374826	0.83[EUR][1000 genomes]
rs9385082	0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9385083	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9387664	0.86[EUR][1000 genomes]
rs9387668	0.90[EUR][1000 genomes]
rs9387669	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9387672	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9387678	0.84[EUR][1000 genomes]
rs9387679	0.84[EUR][1000 genomes]
rs9398527	0.83[EUR][1000 genomes]
rs9401162	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9481955	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9489765	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3447598	chr6:119558591-120119384	Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
2	esv3389526	chr6:119558598-120190087	ZNF genes & repeats Enhancers Weak transcription Active TSS Bivalent/Poised TSS Genic enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
3	esv3442553	chr6:119742069-120076777	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription	Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
4	nsv1027370	chr6:119869409-120056608	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription	Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	nsv538431	chr6:119869409-120056608	Weak transcription Active TSS Enhancers Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Strong transcription	Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
6	nsv1028580	chr6:120032073-120095538	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1884255	NT5DC1	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:120038600-120048600	Weak transcription	ES-I3 Cell Line	embryonic stem cell

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