Variant report

Variant	rs17885060
Chromosome Location	chr19:18184629-18184630
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr19:18117843..18118390-chr19:18184493..18185248,2	MCF-7	breast:
2	chr19:18175848..18177697-chr19:18184239..18186730,2	MCF-7	breast:
3	chr19:18184421..18186715-chr19:18208443..18210278,2	K562	blood:
4	chr19:18183643..18186690-chr19:18187876..18191058,3	K562	blood:
5	chr19:18179477..18182800-chr19:18183743..18186734,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000105643	Chromatin interaction
ENSG00000099308	Chromatin interaction
ENSG00000096996	Chromatin interaction

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs11086087	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12609078	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12609086	0.83[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12609091	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12610456	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs17878401	0.97[EUR][1000 genomes]
rs17878440	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17878594	0.95[EUR][1000 genomes]
rs17878896	0.95[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17879124	0.95[EUR][1000 genomes]
rs17879435	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17879591	0.95[EUR][1000 genomes]
rs17880761	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs17881885	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs17884740	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17886247	0.91[AFR][1000 genomes]
rs3761041	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59324511	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs60208336	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs61092264	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs62121128	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs62121129	0.85[EUR][1000 genomes]
rs62121148	0.80[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7247941	0.91[EUR][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	nsv1055932	chr19:17923918-18369944	Weak transcription Strong transcription Bivalent/Poised TSS Enhancers Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	109 gene(s)	inside rSNPs	diseases
2	nsv543923	chr19:17923918-18369944	Strong transcription Weak transcription Genic enhancers Enhancers Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	109 gene(s)	inside rSNPs	diseases
3	nsv532614	chr19:18033043-18573963	Flanking Active TSS Enhancers Active TSS Genic enhancers Weak transcription Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	204 gene(s)	inside rSNPs	diseases
4	nsv470130	chr19:18047283-18234587	Weak transcription Enhancers Strong transcription Bivalent Enhancer Genic enhancers Flanking Active TSS Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	52 gene(s)	inside rSNPs	diseases
5	esv1837595	chr19:18085428-18393682	Weak transcription Enhancers Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	147 gene(s)	inside rSNPs	diseases
6	nsv833773	chr19:18152971-18302988	Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS Enhancers Genic enhancers Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
7	nsv911237	chr19:18169449-18193060	Enhancers Flanking Active TSS Weak transcription Genic enhancers Strong transcription Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	Chromatin interactive region	8 gene(s)	inside rSNPs	diseases
8	nsv911239	chr19:18173603-18191059	Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers Weak transcription Enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	Chromatin interactive region	7 gene(s)	inside rSNPs	diseases
9	nsv1067871	chr19:18174031-18186197	Weak transcription Strong transcription Genic enhancers Active TSS Enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	Chromatin interactive region	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:32 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:18169200-18190000	Weak transcription	Sigmoid Colon	Sigmoid Colon
2	chr19:18169600-18185600	Weak transcription	Esophagus	oesophagus
3	chr19:18169600-18195000	Weak transcription	Gastric	stomach
4	chr19:18169800-18185000	Weak transcription	Primary monocytes fromperipheralblood	blood
5	chr19:18170200-18197000	Weak transcription	Primary B cells from cord blood	blood
6	chr19:18177400-18186400	Weak transcription	Duodenum Mucosa	Duodenum
7	chr19:18179600-18194200	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
8	chr19:18180000-18185200	Strong transcription	Monocytes-CD14+_RO01746	blood
9	chr19:18181000-18185000	Strong transcription	Primary B cells from peripheral blood	blood
10	chr19:18181400-18191400	Weak transcription	Rectal Mucosa Donor 29	rectum
11	chr19:18182600-18197600	Weak transcription	Right Atrium	heart
12	chr19:18182800-18187200	Strong transcription	Spleen	Spleen
13	chr19:18183000-18185200	Strong transcription	GM12878-XiMat	blood
14	chr19:18183800-18184800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
15	chr19:18183800-18185200	Enhancers	Primary hematopoietic stem cells short term culture	blood
16	chr19:18183800-18185200	Genic enhancers	Primary T helper cells fromperipheralblood	blood
17	chr19:18183800-18185200	Enhancers	Primary T killer naive cells fromperipheralblood	blood
18	chr19:18183800-18185200	Genic enhancers	Primary T killer memory cells from peripheral blood	blood
19	chr19:18183800-18185400	Genic enhancers	Fetal Thymus	thymus
20	chr19:18184000-18184800	Genic enhancers	Primary T helper 17 cells PMA-I stimulated	--
21	chr19:18184000-18185000	Genic enhancers	Primary T helper cells PMA-I stimulated	--
22	chr19:18184000-18185400	Genic enhancers	Primary T cells fromperipheralblood	blood
23	chr19:18184000-18185400	Genic enhancers	Primary Natural Killer cells fromperipheralblood	blood
24	chr19:18184400-18188200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
25	chr19:18184400-18191400	Weak transcription	Thymus	Thymus
26	chr19:18184400-18197400	Weak transcription	Lung	lung
27	chr19:18184600-18185000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
28	chr19:18184600-18186400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
29	chr19:18184600-18187400	Strong transcription	Primary T helper naive cells from peripheral blood	blood
30	chr19:18184600-18188800	Strong transcription	Primary T cells from cord blood	blood
31	chr19:18184600-18194200	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
32	chr19:18184600-18194200	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood

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