Variant report

Variant	rs11119409
Chromosome Location	chr1:210293333-210293334
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:210291718..210293860-chr1:210544632..210547105,2	K562	blood:

Extended variants
information (count: 163 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:157)

rs_ID	r²[population]
rs1028325	0.87[EUR][1000 genomes]
rs1040423	0.84[EUR][1000 genomes]
rs10746423	0.92[EUR][1000 genomes]
rs10779516	0.86[EUR][1000 genomes]
rs10779517	0.87[EUR][1000 genomes]
rs10779518	0.87[EUR][1000 genomes]
rs10779523	0.89[EUR][1000 genomes]
rs10863799	0.85[EUR][1000 genomes]
rs10863811	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1099863	0.88[EUR][1000 genomes]
rs11119363	0.81[EUR][1000 genomes]
rs11119369	0.86[EUR][1000 genomes]
rs11119374	0.93[EUR][1000 genomes]
rs11119375	0.90[EUR][1000 genomes]
rs11119376	0.87[EUR][1000 genomes]
rs11119378	0.81[EUR][1000 genomes]
rs11119382	0.95[EUR][1000 genomes]
rs11119407	0.85[AFR][1000 genomes];0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11119413	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11119414	0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12025114	1.00[CEU][hapmap];0.91[CHB][hapmap];0.89[GIH][hapmap];1.00[MEX][hapmap];0.83[MKK][hapmap];0.95[TSI][hapmap]
rs12042135	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12092530	0.81[EUR][1000 genomes]
rs126277	0.93[EUR][1000 genomes]
rs126278	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1334567	0.93[EUR][1000 genomes]
rs1334568	0.93[EUR][1000 genomes]
rs1334569	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1387933	0.88[EUR][1000 genomes]
rs1387934	0.95[CHB][hapmap];0.91[JPT][hapmap];0.82[YRI][hapmap];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1490419	0.88[EUR][1000 genomes]
rs170552	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs170553	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs170555	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs170557	0.89[EUR][1000 genomes]
rs170558	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs183450	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs189000	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs189001	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2046849	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2142861	0.93[EUR][1000 genomes]
rs2200970	0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2205987	0.83[EUR][1000 genomes]
rs2205988	0.86[EUR][1000 genomes]
rs2205989	0.93[EUR][1000 genomes]
rs227168	0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs227169	0.89[EUR][1000 genomes]
rs227170	0.97[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs227171	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs227172	0.88[EUR][1000 genomes]
rs227173	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs227174	0.89[EUR][1000 genomes]
rs227175	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs227176	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs227177	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs227178	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs227179	0.89[EUR][1000 genomes]
rs227181	0.89[EUR][1000 genomes]
rs227182	0.89[EUR][1000 genomes]
rs227183	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs227184	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs227186	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs227187	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs227188	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs227189	0.85[EUR][1000 genomes]
rs227190	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs227191	0.89[EUR][1000 genomes]
rs227193	0.89[EUR][1000 genomes]
rs227195	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs227196	0.88[EUR][1000 genomes]
rs227197	0.89[EUR][1000 genomes]
rs227200	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs227201	0.89[EUR][1000 genomes]
rs227202	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs227203	0.89[EUR][1000 genomes]
rs227204	0.89[EUR][1000 genomes]
rs227205	0.89[EUR][1000 genomes]
rs227206	0.89[EUR][1000 genomes]
rs227207	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs227209	0.89[EUR][1000 genomes]
rs227211	0.90[EUR][1000 genomes]
rs227216	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs227217	0.88[EUR][1000 genomes]
rs227218	0.88[EUR][1000 genomes]
rs227219	0.89[EUR][1000 genomes]
rs227221	0.95[CHB][hapmap];0.91[JPT][hapmap];0.82[YRI][hapmap];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs227223	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs227224	0.89[EUR][1000 genomes]
rs227225	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs227226	0.87[EUR][1000 genomes]
rs227227	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs227228	0.89[EUR][1000 genomes]
rs227229	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs227230	0.89[EUR][1000 genomes]
rs227232	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2357212	0.96[CEU][hapmap]
rs2473073	0.85[EUR][1000 genomes]
rs2636373	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2636376	0.89[EUR][1000 genomes]
rs2743889	0.89[EUR][1000 genomes]
rs2743891	0.89[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];0.87[CHD][hapmap];0.93[GIH][hapmap];0.91[JPT][hapmap];0.96[MEX][hapmap];0.83[MKK][hapmap];0.95[TSI][hapmap];0.82[YRI][hapmap];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs34946555	0.83[EUR][1000 genomes]
rs4454550	0.84[EUR][1000 genomes]
rs4462143	0.84[EUR][1000 genomes]
rs4844947	0.92[EUR][1000 genomes]
rs4844948	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6540568	0.86[EUR][1000 genomes]
rs6540569	0.96[CEU][hapmap];0.93[TSI][hapmap]
rs6540570	1.00[CEU][hapmap];0.86[CHB][hapmap];0.81[CHD][hapmap];0.93[GIH][hapmap];1.00[MEX][hapmap];0.95[TSI][hapmap];0.86[EUR][1000 genomes]
rs6540573	0.86[EUR][1000 genomes]
rs6540580	0.93[EUR][1000 genomes]
rs6656855	0.93[EUR][1000 genomes]
rs6657984	0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6662445	0.86[EUR][1000 genomes]
rs6667057	0.84[EUR][1000 genomes]
rs6678081	0.87[EUR][1000 genomes]
rs6682334	0.96[EUR][1000 genomes]
rs6682546	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6689456	0.95[EUR][1000 genomes]
rs6702257	0.84[EUR][1000 genomes]
rs6702961	0.84[EUR][1000 genomes]
rs701947	0.96[CEU][hapmap];0.93[TSI][hapmap];0.89[EUR][1000 genomes]
rs701948	0.96[CEU][hapmap];0.93[TSI][hapmap];0.89[EUR][1000 genomes]
rs724054	1.00[CEU][hapmap];0.86[CHB][hapmap];0.82[CHD][hapmap];0.91[GIH][hapmap];1.00[MEX][hapmap];0.95[TSI][hapmap];0.86[EUR][1000 genomes]
rs7513171	0.96[EUR][1000 genomes]
rs7514257	0.89[EUR][1000 genomes]
rs7517019	0.80[EUR][1000 genomes]
rs7519750	0.93[EUR][1000 genomes]
rs7525980	0.89[EUR][1000 genomes]
rs7528647	0.96[CEU][hapmap];0.93[TSI][hapmap];0.80[EUR][1000 genomes]
rs7530426	0.87[EUR][1000 genomes]
rs7544033	0.81[EUR][1000 genomes]
rs7547709	0.89[EUR][1000 genomes]
rs7548989	0.93[EUR][1000 genomes]
rs7549523	1.00[CEU][hapmap];0.86[CHB][hapmap];0.82[CHD][hapmap];0.93[GIH][hapmap];1.00[MEX][hapmap];0.95[TSI][hapmap];0.86[EUR][1000 genomes]
rs7549696	0.81[EUR][1000 genomes]
rs846545	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs846546	0.92[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs846548	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs846549	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs846550	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs846551	0.89[EUR][1000 genomes]
rs846552	0.89[EUR][1000 genomes]
rs846553	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs846554	0.89[EUR][1000 genomes]
rs846555	0.89[EUR][1000 genomes]
rs846556	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs846557	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs846559	0.89[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];0.87[CHD][hapmap];0.93[GIH][hapmap];0.91[JPT][hapmap];1.00[MEX][hapmap];0.85[MKK][hapmap];0.95[TSI][hapmap];0.82[YRI][hapmap];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs860155	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9429827	0.84[EUR][1000 genomes]
rs9429829	1.00[CEU][hapmap];0.86[CHB][hapmap];0.82[CHD][hapmap];0.93[GIH][hapmap];1.00[MEX][hapmap];0.85[MKK][hapmap];0.95[TSI][hapmap];0.85[EUR][1000 genomes]
rs9429830	1.00[CEU][hapmap];0.86[CHB][hapmap];0.82[CHD][hapmap];0.93[GIH][hapmap];1.00[MEX][hapmap];0.95[TSI][hapmap];0.86[EUR][1000 genomes]
rs9430024	0.81[EUR][1000 genomes]
rs9430026	0.92[EUR][1000 genomes]
rs9659395	0.93[EUR][1000 genomes]
rs986057	0.96[CEU][hapmap]

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	nsv1014034	chr1:209759648-210501731	Enhancers Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Strong transcription Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	45 gene(s)	inside rSNPs	diseases
2	nsv873140	chr1:210068117-210335644	Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Bivalent/Poised TSS Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv873141	chr1:210228131-210296910	Weak transcription Strong transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers	Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
4	nsv873143	chr1:210233610-210296910	Enhancers Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS Genic enhancers	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
5	nsv873144	chr1:210252522-210347417	Strong transcription Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Genic enhancers	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
6	nsv818800	chr1:210258653-210304319	Weak transcription Flanking Active TSS Enhancers Strong transcription ZNF genes & repeats Active TSS Bivalent Enhancer Genic enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11119409	DSCR3	trans	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:210283000-210298000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
2	chr1:210291200-210297000	Weak transcription	Pancreatic Islets	Pancreatic Islet
3	chr1:210291600-210295800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
4	chr1:210291800-210295800	Weak transcription	HUES64 Cell Line	embryonic stem cell
5	chr1:210291800-210297200	Weak transcription	HUES48 Cell Line	embryonic stem cell
6	chr1:210291800-210297400	Weak transcription	iPS-15b Cell Line	embryonic stem cell

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