Variant report

Variant	rs6510996
Chromosome Location	chr19:18788208-18788209
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:9)
LncRNA
region (count:1)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:9 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr19:18697302..18699844-chr19:18787723..18790460,2	MCF-7	breast:
2	chr19:18781923..18783867-chr19:18787837..18789720,2	K562	blood:
3	chr19:18786344..18788894-chr19:18792573..18794352,2	K562	blood:
4	chr19:18787745..18791720-chr19:18792743..18796272,4	MCF-7	breast:
5	chr19:18682620..18684226-chr19:18786730..18789079,2	MCF-7	breast:
6	chr19:18770128..18772362-chr19:18787089..18788898,2	K562	blood:
7	chr19:18787394..18789659-chr19:18792852..18794462,2	K562	blood:
8	chr19:18781390..18783867-chr19:18783988..18789720,5	K562	blood:
9	chr19:18786668..18789315-chr19:18956756..18958447,2	MCF-7	breast:

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

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-KLHL26-1	chr19:18788098-18788425	NONHSAT062992

No data

Variant related genes	Relation type
ENSG00000006015	Chromatin interaction
ENSG00000221983	Chromatin interaction
ENSG00000105662	Chromatin interaction

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs10412053	0.82[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs10412858	0.90[AMR][1000 genomes];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10419226	0.92[ASN][1000 genomes]
rs10420228	0.92[ASN][1000 genomes]
rs10421503	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10854003	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11085236	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11883401	0.95[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12976113	0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1473116	0.96[ASN][1000 genomes]
rs2214524	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2385178	0.91[ASN][1000 genomes]
rs2891698	0.81[ASN][1000 genomes]
rs3829671	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4808145	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4808147	0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6510995	0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7246437	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7257812	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs757347	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs757350	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs8100824	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs8102046	0.82[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs876982	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs886443	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs889364	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[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	nsv1057795	chr19:18453362-18883844	Active TSS Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	92 gene(s)	inside rSNPs	diseases
2	nsv543925	chr19:18453362-18883844	Weak transcription Genic enhancers Strong transcription Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	92 gene(s)	inside rSNPs	diseases
3	nsv532615	chr19:18534867-18796031	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	71 gene(s)	inside rSNPs	diseases
4	nsv911282	chr19:18624964-18928480	ZNF genes & repeats Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	60 gene(s)	inside rSNPs	diseases
5	nsv911286	chr19:18652844-18811112	Active TSS Flanking Active TSS Enhancers Strong transcription Weak transcription Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
6	nsv911289	chr19:18700047-18811112	Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Genic enhancers Active TSS Bivalent/Poised TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:92 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:18760400-18794800	Weak transcription	Placenta Amnion	Placenta Amnion
2	chr19:18770400-18793600	Weak transcription	GM12878-XiMat	blood
3	chr19:18775200-18793800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr19:18777800-18793800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
5	chr19:18780000-18788800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
6	chr19:18780200-18788800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
7	chr19:18780200-18793400	Weak transcription	Primary hematopoietic stem cells	blood
8	chr19:18780200-18793800	Weak transcription	H9 Cell Line	embryonic stem cell
9	chr19:18780400-18793800	Weak transcription	Right Ventricle	heart
10	chr19:18780600-18788800	Weak transcription	Rectal Mucosa Donor 31	rectum
11	chr19:18780800-18793800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
12	chr19:18780800-18793800	Weak transcription	Primary T helper cells PMA-I stimulated	--
13	chr19:18781000-18789000	Weak transcription	Rectal Mucosa Donor 29	rectum
14	chr19:18781000-18793800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
15	chr19:18781200-18788600	Weak transcription	Primary neutrophils fromperipheralblood	blood
16	chr19:18781200-18789000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
17	chr19:18781200-18789000	Weak transcription	Liver	Liver
18	chr19:18782000-18789600	Enhancers	Breast Myoepithelial Primary Cells	Breast
19	chr19:18782200-18793600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
20	chr19:18782800-18793800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
21	chr19:18783000-18788800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
22	chr19:18783200-18789200	Weak transcription	Psoas Muscle	Psoas
23	chr19:18783200-18793800	Weak transcription	Spleen	Spleen
24	chr19:18783400-18793000	Weak transcription	Dnd41	blood
25	chr19:18783400-18793600	Weak transcription	Primary T cells from cord blood	blood
26	chr19:18783400-18793600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
27	chr19:18783600-18788800	Weak transcription	Stomach Mucosa	stomach
28	chr19:18783600-18789000	Weak transcription	Duodenum Smooth Muscle	Duodenum
29	chr19:18784000-18788800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
30	chr19:18784000-18788800	Weak transcription	Rectal Smooth Muscle	rectum
31	chr19:18785600-18788600	Weak transcription	Cortex derived primary cultured neurospheres	brain
32	chr19:18785800-18788800	Weak transcription	Ovary	ovary
33	chr19:18785800-18793800	Weak transcription	Brain Angular Gyrus	brain
34	chr19:18785800-18793800	Weak transcription	Fetal Heart	heart
35	chr19:18786000-18788800	Weak transcription	Right Atrium	heart
36	chr19:18786000-18789000	Weak transcription	Brain Hippocampus Middle	brain
37	chr19:18786000-18789000	Weak transcription	Brain Substantia Nigra	brain
38	chr19:18786600-18788800	Weak transcription	Stomach Smooth Muscle	stomach
39	chr19:18786800-18788800	Enhancers	Skeletal Muscle Female	skeletal muscle
40	chr19:18787000-18788600	Enhancers	Skeletal Muscle Male	skeletal muscle
41	chr19:18787400-18788400	Enhancers	Hela-S3	cervix
42	chr19:18787400-18788800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
43	chr19:18787400-18789000	Enhancers	HSMMtube	muscle
44	chr19:18787400-18789600	Enhancers	Placenta	Placenta
45	chr19:18787600-18788600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
46	chr19:18787600-18788800	Enhancers	Fetal Muscle Trunk	muscle
47	chr19:18787600-18789400	Flanking Active TSS	HepG2	liver
48	chr19:18787600-18789600	Enhancers	Colon Smooth Muscle	Colon
49	chr19:18787600-18789600	Enhancers	Fetal Muscle Leg	muscle
50	chr19:18787600-18789800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived

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