Variant report

Variant	rs9535538
Chromosome Location	chr13:51536053-51536054
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 24 )
Associated
traits (count: 2 )

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

rs_ID	r²[population]
rs10400653	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.85[AFR][1000 genomes];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1041017	0.83[ASW][hapmap];0.85[LWK][hapmap]
rs11616524	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11617366	0.88[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.98[LWK][hapmap];1.00[MEX][hapmap];0.96[MKK][hapmap];0.96[TSI][hapmap];0.96[YRI][hapmap];0.86[AFR][1000 genomes];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17075018	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.82[MKK][hapmap];1.00[TSI][hapmap];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17075030	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67932352	0.87[AFR][1000 genomes];0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73186365	1.00[ASN][1000 genomes]
rs73186367	1.00[ASN][1000 genomes]
rs73186368	1.00[ASN][1000 genomes]
rs73186369	1.00[ASN][1000 genomes]
rs73186371	1.00[ASN][1000 genomes]
rs73186372	0.86[AFR][1000 genomes];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73186374	1.00[ASN][1000 genomes]
rs73186376	1.00[ASN][1000 genomes]
rs73186381	1.00[ASN][1000 genomes]
rs73186382	1.00[ASN][1000 genomes]
rs73186390	1.00[ASN][1000 genomes]
rs7331290	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7999515	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9316511	0.81[CHD][hapmap]
rs9535529	0.89[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.95[LWK][hapmap];0.90[MEX][hapmap];0.95[MKK][hapmap];1.00[TSI][hapmap];0.89[YRI][hapmap];0.82[AFR][1000 genomes];0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9535531	1.00[CHD][hapmap];0.86[ASN][1000 genomes]
rs9535533	0.83[AFR][1000 genomes];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs9535538	RNASEH2B	cis	parietal	SCAN
rs9535538	RNASEH2B	cis	cerebellum	SCAN

Chromatin state (count:105 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:51491600-51551000	Weak transcription	Small Intestine	intestine
2	chr13:51503000-51538200	Weak transcription	HMEC	breast
3	chr13:51503200-51549400	Weak transcription	Psoas Muscle	Psoas
4	chr13:51503600-51551800	Strong transcription	Dnd41	blood
5	chr13:51504400-51551800	Strong transcription	Fetal Thymus	thymus
6	chr13:51506600-51538600	Weak transcription	K562	blood
7	chr13:51509400-51541400	Weak transcription	A549	lung
8	chr13:51509600-51538800	Weak transcription	Right Ventricle	heart
9	chr13:51509600-51542400	Weak transcription	NHEK	skin
10	chr13:51509800-51543200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
11	chr13:51509800-51550200	Weak transcription	Brain Cingulate Gyrus	brain
12	chr13:51510000-51539600	Weak transcription	Fetal Heart	heart
13	chr13:51510000-51545400	Weak transcription	Placenta Amnion	Placenta Amnion
14	chr13:51510200-51543800	Weak transcription	Pancreas	Pancrea
15	chr13:51510200-51545000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
16	chr13:51510200-51546200	Weak transcription	Skeletal Muscle Female	skeletal muscle
17	chr13:51512000-51546200	Strong transcription	Monocytes-CD14+_RO01746	blood
18	chr13:51512200-51539400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
19	chr13:51512400-51543800	Weak transcription	HUES6 Cell Line	embryonic stem cell
20	chr13:51512800-51542400	Weak transcription	Fetal Brain Male	brain
21	chr13:51513000-51543800	Weak transcription	HUES64 Cell Line	embryonic stem cell
22	chr13:51513000-51552200	Weak transcription	Skeletal Muscle Male	skeletal muscle
23	chr13:51513200-51540600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
24	chr13:51513200-51546800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
25	chr13:51515200-51537400	Weak transcription	HepG2	liver
26	chr13:51516400-51548800	Weak transcription	Gastric	stomach
27	chr13:51517200-51543800	Weak transcription	Spleen	Spleen
28	chr13:51518000-51538200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
29	chr13:51518000-51550400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
30	chr13:51518000-51551200	Weak transcription	Placenta	Placenta
31	chr13:51518200-51539000	Weak transcription	Esophagus	oesophagus
32	chr13:51518200-51543800	Weak transcription	Lung	lung
33	chr13:51518600-51539000	Weak transcription	Ovary	ovary
34	chr13:51518600-51552000	Weak transcription	Fetal Brain Female	brain
35	chr13:51518800-51549000	Weak transcription	Fetal Intestine Small	intestine
36	chr13:51521400-51538600	Weak transcription	Aorta	Aorta
37	chr13:51521400-51549000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
38	chr13:51523600-51555200	Weak transcription	HSMMtube	muscle
39	chr13:51523800-51546000	Weak transcription	Muscle Satellite Cultured Cells	--
40	chr13:51523800-51550600	Weak transcription	HSMM	muscle
41	chr13:51524400-51538800	Weak transcription	Rectal Mucosa Donor 31	rectum
42	chr13:51524600-51548400	Weak transcription	NHDF-Ad	bronchial
43	chr13:51524600-51550400	Weak transcription	Rectal Smooth Muscle	rectum
44	chr13:51524800-51539200	Weak transcription	Liver	Liver
45	chr13:51524800-51552200	Weak transcription	Colonic Mucosa	Colon
46	chr13:51525400-51547400	Weak transcription	Osteobl	bone
47	chr13:51525600-51543800	Weak transcription	Fetal Stomach	stomach
48	chr13:51525800-51547400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
49	chr13:51526200-51537800	Weak transcription	GM12878-XiMat	blood
50	chr13:51526200-51540200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood

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