Variant report

Variant	rs1195472
Chromosome Location	chr1:212738909-212738910
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:212729491..212744666-chr1:212778733..212791648,68	K562	blood:
2	chr1:212729172..212744062-chr1:212776412..212791648,77	K562	blood:

Variant related genes	Relation type
ENSG00000162772	Chromatin interaction
ENSG00000264590	Chromatin interaction

Extended variants
information (count: 17 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs1001304	0.91[JPT][hapmap]
rs1021378	0.86[CHB][hapmap];0.87[JPT][hapmap]
rs11805307	0.82[JPT][hapmap]
rs2137424	0.83[GIH][hapmap]
rs3106405	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3122719	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3125289	0.91[CHB][hapmap];0.97[CHD][hapmap];0.98[GIH][hapmap];0.95[JPT][hapmap];0.91[MEX][hapmap];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3125290	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs640791	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6659881	0.86[CHB][hapmap];0.87[JPT][hapmap]
rs791851	0.95[CHB][hapmap];0.87[JPT][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	nsv549139	chr1:212332294-212876902	Flanking Active TSS Weak transcription Bivalent Enhancer Strong transcription Enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	114 gene(s)	inside rSNPs	diseases
2	nsv1013110	chr1:212555764-212948092	Flanking Active TSS Bivalent/Poised TSS Strong transcription Enhancers Bivalent Enhancer Weak transcription ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	81 gene(s)	inside rSNPs	diseases
3	nsv535287	chr1:212555764-212948092	Weak transcription Bivalent Enhancer Flanking Active TSS Enhancers Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	81 gene(s)	inside rSNPs	diseases
4	esv2757770	chr1:212648143-212843103	Flanking Active TSS Enhancers Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	77 gene(s)	inside rSNPs	diseases
5	esv2758996	chr1:212648143-212843103	Enhancers Flanking Bivalent TSS/Enh Genic enhancers Active TSS Bivalent Enhancer Flanking Active TSS Weak transcription Strong transcription Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	77 gene(s)	inside rSNPs	diseases
6	nsv428588	chr1:212705588-212862875	Active TSS Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Weak transcription Strong transcription Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	78 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs1195472	LOC642587	cis	parietal	SCAN
rs1195472	IL24	cis	cerebellum	SCAN
rs1195472	VASH2	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:212732800-212739600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
2	chr1:212732800-212739600	Weak transcription	Duodenum Mucosa	Duodenum
3	chr1:212732800-212739800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
4	chr1:212732800-212739800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
5	chr1:212732800-212739800	Weak transcription	Stomach Mucosa	stomach
6	chr1:212732800-212740000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
7	chr1:212733000-212739600	Weak transcription	Primary T helper cells fromperipheralblood	blood
8	chr1:212733000-212739600	Weak transcription	Adipose Nuclei	Adipose
9	chr1:212733000-212739800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
10	chr1:212733000-212739800	Weak transcription	Rectal Mucosa Donor 31	rectum
11	chr1:212733000-212740600	Weak transcription	Fetal Heart	heart
12	chr1:212733200-212739600	Weak transcription	Primary T helper cells PMA-I stimulated	--
13	chr1:212734400-212740000	Weak transcription	Aorta	Aorta
14	chr1:212735000-212739800	Weak transcription	Stomach Smooth Muscle	stomach
15	chr1:212735200-212739800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
16	chr1:212735200-212739800	Weak transcription	Left Ventricle	heart
17	chr1:212735200-212740000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
18	chr1:212735200-212740000	Weak transcription	Right Atrium	heart
19	chr1:212735400-212740000	Weak transcription	Placenta Amnion	Placenta Amnion
20	chr1:212735600-212739200	Weak transcription	HUVEC	blood vessel
21	chr1:212735600-212739600	Weak transcription	HSMM	muscle
22	chr1:212735600-212739800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
23	chr1:212735600-212739800	Weak transcription	Muscle Satellite Cultured Cells	--
24	chr1:212735600-212739800	Weak transcription	NH-A	brain
25	chr1:212735800-212739800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
26	chr1:212736400-212739800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
27	chr1:212738000-212739600	Enhancers	Hela-S3	cervix
28	chr1:212738000-212740000	Enhancers	Placenta	Placenta
29	chr1:212738200-212739600	Enhancers	GM12878-XiMat	blood
30	chr1:212738400-212739000	Enhancers	HSMMtube	muscle
31	chr1:212738600-212739800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
32	chr1:212738800-212739800	Enhancers	NHLF	lung

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