Variant report

Variant	rs9535526
Chromosome Location	chr13:51484445-51484446
allele	C/T
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:8)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:8 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr13:51484185..51486351-chr13:51503175..51505041,2	MCF-7	breast:
2	chr13:50696984..50702154-chr13:51483455..51488031,9	K562	blood:
3	chr13:51484081..51484759-chr3:150264254..150264982,2	Hela-S3	cervix:
4	chr13:50510515..50512106-chr13:51482735..51485474,2	K562	blood:
5	chr13:50654380..50657403-chr13:51482897..51486295,4	K562	blood:
6	chr13:51483541..51484529-chr4:164415235..164416192,2	HCT-116	colon:
7	chr13:51473931..51480255-chr13:51481989..51485518,9	MCF-7	breast:
8	chr13:50696939..50701257-chr13:51483386..51488031,9	K562	blood:

No data

Variant related genes	Relation type
ENSG00000231607	Chromatin interaction
ENSG00000144895	Chromatin interaction
ENSG00000198498	Chromatin interaction
ENSG00000233672	Chromatin interaction
ENSG00000176124	Chromatin interaction
ENSG00000123178	Chromatin interaction
ENSG00000136104	Chromatin interaction
ENSG00000120742	Chromatin interaction

Extended variants
information (count: 21 )
Associated
traits (count: 10 )

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs17074987	0.88[CEU][hapmap];0.95[CHB][hapmap];0.88[CHD][hapmap];0.87[GIH][hapmap];0.91[JPT][hapmap];1.00[MEX][hapmap];0.84[TSI][hapmap];0.92[AMR][1000 genomes];0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2274069	0.92[AFR][1000 genomes];0.85[AMR][1000 genomes];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4941677	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4941678	0.80[EUR][1000 genomes]
rs4942943	0.80[CEU][hapmap];0.90[CHB][hapmap];0.90[CHD][hapmap];0.87[GIH][hapmap];0.82[TSI][hapmap];0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs59310144	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6561599	0.82[CHB][hapmap];0.95[JPT][hapmap];0.80[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs6561601	0.91[CHB][hapmap];0.95[CHD][hapmap];0.91[JPT][hapmap];0.91[MEX][hapmap];0.81[MKK][hapmap];0.86[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs6561602	0.87[CHB][hapmap];0.93[CHD][hapmap];0.86[ASN][1000 genomes]
rs6561603	0.87[EUR][1000 genomes]
rs7316955	0.96[CEU][hapmap];0.83[EUR][1000 genomes]
rs7317618	0.88[CHD][hapmap]
rs7319356	0.89[AFR][1000 genomes];0.86[AMR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7324232	0.93[CHD][hapmap];1.00[MEX][hapmap];0.81[MKK][hapmap];0.82[YRI][hapmap];0.88[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs7329171	0.90[CHD][hapmap]
rs7988945	1.00[CEU][hapmap];0.95[CHB][hapmap];0.93[CHD][hapmap];0.98[GIH][hapmap];0.91[JPT][hapmap];1.00[MEX][hapmap];0.81[MKK][hapmap];0.93[TSI][hapmap];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9535523	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9535531	0.85[GIH][hapmap]
rs9535534	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv900077	chr13:51446114-51514831	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	nsv826645	chr13:51483815-51484897	Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Enhancers	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

mRNA abundance (count:10)

SNP	Gene	Cis/trans	Tissue	Source
rs9535526	RNASEH2B	cis	Stomach	GTEx
rs9535526	AK027555	cis	multi-tissue	Pritchard
rs9535526	RNASEH2B	cis	Thyroid	GTEx
rs9535526	RNASEH2B	cis	Muscle Skeletal	GTEx
rs9535526	RNASEH2B	cis	Artery Tibial	GTEx
rs9535526	RNASEH2B	cis	Liver	GTEx
rs9535526	RNASEH2B	cis	parietal	SCAN
rs9535526	RNASEH2B	cis	Esophagus Muscularis	GTEx
rs9535526	RNASEH2B	cis	multi-tissue	Pritchard
rs9535526	RNASEH2B	cis	cerebellum	SCAN

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:51483000-51484800	Active TSS	Rectal Smooth Muscle	rectum
2	chr13:51483200-51484600	Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
3	chr13:51483400-51484600	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
4	chr13:51483400-51484600	Active TSS	HUES48 Cell Line	embryonic stem cell
5	chr13:51483400-51484600	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
6	chr13:51483400-51484600	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
7	chr13:51483400-51484600	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
8	chr13:51483400-51484600	Active TSS	Liver	Liver
9	chr13:51483400-51484600	Active TSS	Brain Anterior Caudate	brain
10	chr13:51483400-51484600	Active TSS	Brain Hippocampus Middle	brain
11	chr13:51483400-51484600	Active TSS	Colonic Mucosa	Colon
12	chr13:51483400-51484600	Active TSS	Fetal Brain Female	brain
13	chr13:51483400-51484600	Active TSS	Fetal Muscle Trunk	muscle
14	chr13:51483400-51484600	Active TSS	Rectal Mucosa Donor 29	rectum
15	chr13:51483400-51484600	Active TSS	Right Ventricle	heart
16	chr13:51483400-51484600	Active TSS	Skeletal Muscle Female	skeletal muscle
17	chr13:51483400-51484600	Active TSS	NH-A	brain
18	chr13:51483400-51484800	Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr13:51483400-51484800	Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
20	chr13:51483400-51484800	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
21	chr13:51483400-51484800	Active TSS	Brain Substantia Nigra	brain
22	chr13:51483400-51484800	Active TSS	Colon Smooth Muscle	Colon
23	chr13:51483400-51484800	Active TSS	Duodenum Mucosa	Duodenum
24	chr13:51483400-51484800	Active TSS	Fetal Intestine Small	intestine
25	chr13:51483400-51484800	Active TSS	Fetal Stomach	stomach
26	chr13:51483400-51484800	Active TSS	Right Atrium	heart
27	chr13:51483400-51484800	Active TSS	NHEK	skin
28	chr13:51483400-51484800	Active TSS	Osteobl	bone
29	chr13:51483400-51485000	Active TSS	ES-I3 Cell Line	embryonic stem cell
30	chr13:51483400-51485000	Active TSS	H9 Cell Line	embryonic stem cell
31	chr13:51483400-51485000	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
32	chr13:51483400-51485000	Active TSS	HUES64 Cell Line	embryonic stem cell
33	chr13:51483400-51485000	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
34	chr13:51483400-51485000	Active TSS	Aorta	Aorta
35	chr13:51483400-51485000	Active TSS	Brain Angular Gyrus	brain
36	chr13:51483400-51485000	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
37	chr13:51483400-51485000	Active TSS	Duodenum Smooth Muscle	Duodenum
38	chr13:51483400-51485000	Active TSS	Fetal Kidney	kidney
39	chr13:51483400-51485000	Active TSS	Pancreatic Islets	Pancreatic Islet
40	chr13:51483400-51485000	Active TSS	NHLF	lung
41	chr13:51483400-51485200	Active TSS	iPS-20b Cell Line	embryonic stem cell
42	chr13:51483400-51485200	Active TSS	Primary T killer memory cells from peripheral blood	blood
43	chr13:51483400-51485200	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
44	chr13:51483400-51485200	Active TSS	A549	lung
45	chr13:51483400-51485200	Active TSS	Hela-S3	cervix
46	chr13:51483400-51485200	Active TSS	NHDF-Ad	bronchial
47	chr13:51483400-51485400	Active TSS	K562	blood
48	chr13:51483400-51485600	Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
49	chr13:51483400-51486200	Flanking Active TSS	Primary hematopoietic stem cells	blood
50	chr13:51483400-51486400	Active TSS	Thymus	Thymus

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