Variant report

Variant	rs11159
Chromosome Location	chr6:167343141-167343142
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 59 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs13201493	0.85[EUR][1000 genomes]
rs13201941	0.85[EUR][1000 genomes]
rs13202098	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs13213544	0.82[EUR][1000 genomes]
rs13216122	0.81[EUR][1000 genomes]
rs13220568	0.85[EUR][1000 genomes]
rs13437363	0.84[ASN][1000 genomes]
rs34078068	0.81[EUR][1000 genomes]
rs34101156	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs34116393	0.85[EUR][1000 genomes]
rs34159386	0.85[EUR][1000 genomes]
rs34431091	0.85[EUR][1000 genomes]
rs35206089	0.82[EUR][1000 genomes]
rs35614625	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35615089	0.85[EUR][1000 genomes]
rs35731380	0.89[EUR][1000 genomes]
rs36032379	0.85[EUR][1000 genomes]
rs58251236	0.85[EUR][1000 genomes]
rs59988493	0.85[EUR][1000 genomes]
rs60908348	0.85[EUR][1000 genomes]
rs6913013	0.82[ASN][1000 genomes]
rs6916542	0.85[EUR][1000 genomes]
rs6930995	1.00[JPT][hapmap]
rs71571463	0.85[EUR][1000 genomes]
rs71571464	0.85[EUR][1000 genomes]
rs71571465	0.85[EUR][1000 genomes]
rs71571466	0.87[EUR][1000 genomes]
rs7740833	0.89[EUR][1000 genomes]
rs7755545	0.85[EUR][1000 genomes]
rs9295378	0.81[EUR][1000 genomes]
rs9295379	0.83[EUR][1000 genomes]
rs9295380	0.90[EUR][1000 genomes]
rs9295382	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9457239	0.87[EUR][1000 genomes]
rs9457243	0.85[EUR][1000 genomes]
rs9457244	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9457245	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9459799	0.83[EUR][1000 genomes]
rs9459800	0.89[EUR][1000 genomes]
rs9459802	0.89[EUR][1000 genomes]
rs9459803	0.89[EUR][1000 genomes]
rs9459804	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9459806	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:16 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv605260	chr6:166984094-167455139	Enhancers Strong transcription Weak transcription Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	13 gene(s)	inside rSNPs	diseases
2	nsv1019381	chr6:167090236-167558598	Enhancers Weak transcription Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	14 gene(s)	inside rSNPs	diseases
3	nsv538541	chr6:167090236-167558598	Enhancers Weak transcription Active TSS Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	14 gene(s)	inside rSNPs	diseases
4	nsv1022866	chr6:167108740-167345629	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Active TSS Strong transcription Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
5	nsv605327	chr6:167185674-167360389	Enhancers Weak transcription Bivalent Enhancer Active TSS Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
6	nsv1027314	chr6:167194653-167355961	Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Weak transcription Bivalent/Poised TSS Genic enhancers Active TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
7	nsv538542	chr6:167194653-167355961	Strong transcription Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
8	nsv605332	chr6:167198027-167353701	Strong transcription Weak transcription Enhancers ZNF genes & repeats Active TSS Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
9	nsv948634	chr6:167200671-167838993	Enhancers Weak transcription Strong transcription Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	25 gene(s)	inside rSNPs	diseases
10	nsv482507	chr6:167282376-167474915	Strong transcription Weak transcription Enhancers ZNF genes & repeats Active TSS Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	11 gene(s)	inside rSNPs	diseases
11	nsv532074	chr6:167320656-167781977	Weak transcription Enhancers Active TSS Bivalent Enhancer Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	23 gene(s)	inside rSNPs	diseases
12	nsv1031039	chr6:167324021-167741439	Weak transcription Genic enhancers Strong transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	21 gene(s)	inside rSNPs	diseases
13	nsv538543	chr6:167324021-167741439	Flanking Active TSS Weak transcription Enhancers Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	21 gene(s)	inside rSNPs	diseases
14	nsv1026972	chr6:167335031-167671042	Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	19 gene(s)	inside rSNPs	diseases
15	esv3325880	chr6:167341762-167346360	Genic enhancers Weak transcription Strong transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Transcr. at gene 5' and 3'	n/a	n/a	inside rSNPs	diseases
16	esv3432200	chr6:167342462-167345660	Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3'	n/a	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11159	RNASET2	cis	multi-tissue	Pritchard

Chromatin state (count:97 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:167318400-167343800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr6:167334000-167343600	Weak transcription	Fetal Brain Male	brain
3	chr6:167335400-167343800	Weak transcription	Right Atrium	heart
4	chr6:167335600-167346200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
5	chr6:167337600-167350000	Weak transcription	Ovary	ovary
6	chr6:167337600-167363400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
7	chr6:167338200-167356000	Strong transcription	Primary neutrophils fromperipheralblood	blood
8	chr6:167339000-167343800	Strong transcription	GM12878-XiMat	blood
9	chr6:167339200-167344000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
10	chr6:167339200-167348400	Strong transcription	Primary T cells from cord blood	blood
11	chr6:167339400-167343800	Weak transcription	Brain Angular Gyrus	brain
12	chr6:167340000-167358800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
13	chr6:167340000-167363000	Strong transcription	Primary monocytes fromperipheralblood	blood
14	chr6:167340000-167363000	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
15	chr6:167340200-167343800	Strong transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
16	chr6:167340200-167344200	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
17	chr6:167340200-167344800	Strong transcription	Primary T cells fromperipheralblood	blood
18	chr6:167340200-167349800	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
19	chr6:167340200-167354600	Strong transcription	Fetal Intestine Small	intestine
20	chr6:167340200-167362800	Strong transcription	Monocytes-CD14+_RO01746	blood
21	chr6:167340400-167343400	Strong transcription	Duodenum Mucosa	Duodenum
22	chr6:167340400-167343800	Strong transcription	Primary T helper cells fromperipheralblood	blood
23	chr6:167340400-167344600	Strong transcription	Stomach Smooth Muscle	stomach
24	chr6:167340400-167357200	Strong transcription	Sigmoid Colon	Sigmoid Colon
25	chr6:167340400-167363000	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
26	chr6:167340600-167343800	Strong transcription	Rectal Mucosa Donor 29	rectum
27	chr6:167340600-167344400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
28	chr6:167340600-167345600	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
29	chr6:167340600-167348400	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
30	chr6:167340600-167353400	Strong transcription	HepG2	liver
31	chr6:167340600-167363000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
32	chr6:167340800-167343400	Strong transcription	Spleen	Spleen
33	chr6:167340800-167343600	Weak transcription	Skeletal Muscle Male	skeletal muscle
34	chr6:167340800-167343800	Weak transcription	Fetal Kidney	kidney
35	chr6:167340800-167343800	Weak transcription	Fetal Lung	lung
36	chr6:167340800-167344200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
37	chr6:167340800-167344600	Strong transcription	Primary T helper cells PMA-I stimulated	--
38	chr6:167340800-167350000	Weak transcription	Fetal Brain Female	brain
39	chr6:167340800-167359600	Weak transcription	H1 Cell Line	embryonic stem cell
40	chr6:167341000-167343600	Weak transcription	Skeletal Muscle Female	skeletal muscle
41	chr6:167341000-167349800	Weak transcription	Fetal Muscle Leg	muscle
42	chr6:167341000-167368800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
43	chr6:167341200-167348800	Strong transcription	Thymus	Thymus
44	chr6:167341200-167368800	Weak transcription	Colon Smooth Muscle	Colon
45	chr6:167341400-167344400	Strong transcription	Aorta	Aorta
46	chr6:167341400-167361400	Strong transcription	Rectal Mucosa Donor 31	rectum
47	chr6:167341600-167343200	Strong transcription	Liver	Liver
48	chr6:167341600-167343200	Strong transcription	Lung	lung
49	chr6:167341600-167343800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
50	chr6:167341600-167343800	Strong transcription	Gastric	stomach

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