Variant report

Variant	rs9348959
Chromosome Location	chr6:11721355-11721356
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 13 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs1009955	1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1413345	0.86[CEU][hapmap];0.83[EUR][1000 genomes]
rs210899	0.87[YRI][hapmap]
rs2235422	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2235427	0.91[CEU][hapmap];0.84[EUR][1000 genomes]
rs9394270	1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9469930	0.87[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs9469932	0.87[AMR][1000 genomes];0.81[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2758036	chr6:11679753-11822351	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	esv2759407	chr6:11679753-11822351	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv428470	chr6:11686198-11747850	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv462637	chr6:11710554-11733777	Weak transcription Strong transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	nsv600990	chr6:11710554-11733777	Weak transcription Enhancers Genic enhancers Strong transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs9348959	C6orf105	Cis_1M	lymphoblastoid	RTeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:11710800-11731000	Weak transcription	Gastric	stomach
2	chr6:11711200-11731000	Weak transcription	Fetal Intestine Small	intestine
3	chr6:11711600-11731800	Weak transcription	Rectal Mucosa Donor 29	rectum
4	chr6:11713400-11723000	Weak transcription	Sigmoid Colon	Sigmoid Colon
5	chr6:11713400-11724600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
6	chr6:11713600-11727600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
7	chr6:11713800-11723200	Weak transcription	HSMMtube	muscle
8	chr6:11714600-11731600	Weak transcription	Small Intestine	intestine
9	chr6:11715200-11728000	Weak transcription	Fetal Thymus	thymus
10	chr6:11715800-11723000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
11	chr6:11716400-11721600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
12	chr6:11716400-11721600	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
13	chr6:11716400-11723000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
14	chr6:11716600-11723000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
15	chr6:11717200-11722600	Genic enhancers	Primary T helper naive cells fromperipheralblood	blood
16	chr6:11718400-11725400	Strong transcription	Rectal Mucosa Donor 31	rectum
17	chr6:11719200-11721800	Strong transcription	Duodenum Mucosa	Duodenum
18	chr6:11719400-11723600	Weak transcription	Primary T cells from cord blood	blood
19	chr6:11719400-11762200	Weak transcription	Colonic Mucosa	Colon
20	chr6:11719600-11721800	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
21	chr6:11719600-11732400	Weak transcription	NHEK	skin
22	chr6:11719800-11721600	Strong transcription	Primary T helper cells PMA-I stimulated	--
23	chr6:11719800-11722600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
24	chr6:11720000-11721600	Genic enhancers	Primary T helper naive cells from peripheral blood	blood
25	chr6:11720000-11722600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
26	chr6:11720400-11721800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
27	chr6:11720800-11721600	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
28	chr6:11721000-11721400	Enhancers	Primary T killer memory cells from peripheral blood	blood
29	chr6:11721000-11721600	Strong transcription	Primary T cells fromperipheralblood	blood
30	chr6:11721000-11721600	Strong transcription	HSMM	muscle
31	chr6:11721000-11723200	Strong transcription	HMEC	breast
32	chr6:11721200-11721400	Genic enhancers	Primary T helper cells fromperipheralblood	blood

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